Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 24 of 130
Found at i:6349319 original size:14 final size:14
Alignment explanation
Indices: 6349297--6349332 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
6349287 TTAAAATACT
*
6349297 TTTTGAAAATTTTA
1 TTTTAAAAATTTTA
6349311 TTTTAAAAATTTTA
1 TTTTAAAAATTTTA
6349325 -TTTAAAAA
1 TTTTAAAAA
6349333 AATTGATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
TTTTAAAAATTTTA
Found at i:6349407 original size:60 final size:56
Alignment explanation
Indices: 6349332--6349545 Score: 184
Period size: 59 Copynumber: 3.7 Consensus size: 56
6349322 TTATTTAAAA
6349332 AAATTGATACTTTCAACTTTTTCCTAAAAATATATATTTTAACCTTTTTATTTTCAAGAG
1 AAATTGATACTTTCAACTTTTTCCTAAAAATAT-T-TTTTAA--TTTTTATTTTCAAGAG
* * * *
6349392 AAATTGATACTTTCAACTTTCTCCCAAAAACCTATTTTTT-ATTTTTGTGTTCAA-AGG
1 AAATTGATACTTTCAACTTTTTCCTAAAAA--TATTTTTTAATTTTTATTTTCAAGA-G
* ** * * * *
6349449 ATATTGACGCATTCAACTTTTATTC-AAAAATATTTTTTAAAAAATTTTATTTTCAAGAA
1 AAATTGATACTTTCAACTTTT-TCCTAAAAATATTTTTT---AATTTTTATTTTCAAGAG
*
6349508 AAATTGATACTTTTAAC-TTTTCCTTAAAAATATTTTTT
1 AAATTGATACTTTCAACTTTTTCC-TAAAAATATTTTTT
6349546 TAAAAAATTT
Statistics
Matches: 123, Mismatches: 20, Indels: 23
0.74 0.12 0.14
Matches are distributed among these distances:
55 8 0.07
56 1 0.01
57 35 0.28
58 5 0.04
59 37 0.30
60 33 0.27
61 1 0.01
62 3 0.02
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (56 bp):
AAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAATTTTTATTTTCAAGAG
Found at i:6349551 original size:15 final size:16
Alignment explanation
Indices: 6349533--6349569 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
6349523 ACTTTTCCTT
6349533 AAAAATATTT-TTTTA-
1 AAAAAT-TTTATTTTAG
6349548 AAAAATTTTATTTTAG
1 AAAAATTTTATTTTAG
6349564 AAAAAT
1 AAAAAT
6349570 CATTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 3 0.15
15 11 0.55
16 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
AAAAATTTTATTTTAG
Found at i:6349554 original size:60 final size:58
Alignment explanation
Indices: 6349302--6349569 Score: 207
Period size: 60 Copynumber: 4.6 Consensus size: 58
6349292 ATACTTTTTG
6349302 AAAAT-TTTATTTTAAAAATTTTA-TTT-AA-AAAAATTGATACTTTCAACTTTTTCCTA
1 AAAATATTT-TTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAAC-TTTTCCTA
* *** * *
6349358 AAAATATATATTTTAACCTTTTTATTTTCAAGAGAAATTGATACTTTCAACTTTCTCCCA
1 AAAATAT-TTTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTT-TCCTA
* * * * * ** * **
6349418 AAAACCTA-TTTTTT---ATTTTTGTGTTCAA-AGGATATTGACGCATTCAACTTTTATTCA
1 AAAA--TATTTTTTTAAAAATTTTATTTTCAAGA-AAAATTGATACTTTCAACTTTTCCT-A
* *
6349475 AAAATATTTTTTAAAAAATTTTATTTTCAAGAAAAATTGATACTTTTAACTTTTCCTTA
1 AAAATATTTTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCC-TA
6349534 AAAATATTTTTTTAAAAAATTTTATTTT--AGAAAAAT
1 AAAATATTTTTTT-AAAAATTTTATTTTCAAGAAAAAT
6349570 CATTAAAAAA
Statistics
Matches: 165, Mismatches: 30, Indels: 32
0.73 0.13 0.14
Matches are distributed among these distances:
55 2 0.01
56 12 0.07
57 45 0.27
58 12 0.07
59 45 0.27
60 47 0.28
62 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.46
Consensus pattern (58 bp):
AAAATATTTTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTA
Found at i:6353169 original size:20 final size:18
Alignment explanation
Indices: 6353141--6353192 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
6353131 ATATATTGCT
*
6353141 ATTTATTTCTTTTATATCCC
1 ATTTCTTTCTTTT-T-TCCC
6353161 ATTTCTTTCTTTTTTCCC
1 ATTTCTTTCTTTTTTCCC
*
6353179 ATACTCTTTCTTTT
1 AT-TTCTTTCTTTT
6353193 GTTTCTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 6 0.21
19 11 0.38
20 12 0.41
ACGTcount: A:0.13, C:0.23, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTCTTTCTTTTTTCCC
Found at i:6353188 original size:19 final size:20
Alignment explanation
Indices: 6353146--6353192 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
6353136 TTGCTATTTA
*
6353146 TTTCTTTTATATCCCATTTC
1 TTTCTTTTATATCCCATCTC
6353166 TTTCTTTT-T-TCCCATACTC
1 TTTCTTTTATATCCCAT-CTC
6353185 TTTCTTTT
1 TTTCTTTT
6353193 GTTTCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 6 0.24
19 11 0.44
20 8 0.32
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTCTTTTATATCCCATCTC
Found at i:6353219 original size:27 final size:27
Alignment explanation
Indices: 6353166--6353221 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
6353156 ATCCCATTTC
6353166 TTTCTTTTTTCCCATACTCTTTCTTTT
1 TTTCTTTTTTCCCATACTCTTTCTTTT
* *
6353193 GTTTC-TTTTTCCCAT-TTCTTTTTTTT
1 -TTTCTTTTTTCCCATACTCTTTCTTTT
6353219 TTT
1 TTT
6353222 TCAAAATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 3 0.12
26 9 0.35
27 10 0.38
28 4 0.15
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.71
Consensus pattern (27 bp):
TTTCTTTTTTCCCATACTCTTTCTTTT
Found at i:6354038 original size:14 final size:14
Alignment explanation
Indices: 6354021--6354052 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
6354011 GGTTTTTTTT
*
6354021 TTTTTAATTTTAGG
1 TTTTTAATTTTAAG
6354035 TTTTTAATTTTAAG
1 TTTTTAATTTTAAG
6354049 TTTT
1 TTTT
6354053 GTAGCATAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (14 bp):
TTTTTAATTTTAAG
Found at i:6362431 original size:21 final size:21
Alignment explanation
Indices: 6362399--6362440 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6362389 AAAAATTAAA
* *
6362399 AAAATCATAAAATATAATTTT
1 AAAATCATAAAAAAGAATTTT
6362420 AAAAT-ATAAAAAAAGAATTTT
1 AAAATCAT-AAAAAAGAATTTT
6362441 GGATATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAATCATAAAAAAGAATTTT
Found at i:6362910 original size:20 final size:20
Alignment explanation
Indices: 6362887--6362959 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
6362877 TATATAAAAA
6362887 TAATTTTATAATTATTTATT
1 TAATTTTATAATTATTTATT
*
6362907 TAATTTTATAATTATTTATA
1 TAATTTTATAATTATTTATT
*
6362927 TATATTTT-T-A-TATATATT
1 TA-ATTTTATAATTATTTATT
*
6362945 TAATTTTATATTTAT
1 TAATTTTATAATTAT
6362960 ATTAAAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
17 5 0.11
18 9 0.20
19 1 0.02
20 25 0.56
21 5 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TAATTTTATAATTATTTATT
Found at i:6362937 original size:16 final size:17
Alignment explanation
Indices: 6362918--6362961 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
6362908 AATTTTATAA
6362918 TTATTTATATAT-ATTT
1 TTATTTATATATAATTT
* *
6362934 TTATATATATTTAATTT
1 TTATTTATATATAATTT
6362951 TATATTTATAT
1 T-TATTTATAT
6362962 TAAAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 10 0.43
17 5 0.22
18 8 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATTTATATATAATTT
Found at i:6362941 original size:12 final size:12
Alignment explanation
Indices: 6362921--6362945 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6362911 TTTATAATTA
6362921 TTTATATATATT
1 TTTATATATATT
6362933 TTTATATATATT
1 TTTATATATATT
6362945 T
1 T
6362946 AATTTTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTATATATATT
Found at i:6362979 original size:23 final size:23
Alignment explanation
Indices: 6362945--6362988 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
6362935 TATATATATT
*
6362945 TAATTTTATATTTATATTAAAAA
1 TAATTTTATATTAATATTAAAAA
*
6362968 TAATATTT-TATTAATTTTAAA
1 TAAT-TTTATATTAATATTAAA
6362989 TCGGATTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATTTTATATTAATATTAAAAA
Found at i:6363390 original size:36 final size:36
Alignment explanation
Indices: 6363310--6363390 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
6363300 GATAAACAAT
*
6363310 ATATAACAATATTCTCAATTTTTAAGATAAAAAATCA
1 ATATAA-AATATTCTCAAATTTTAAGATAAAAAATCA
* * * * * *
6363347 TTCTAAAATATTTTCAAATTTTAAGATAAGAATTTA
1 ATATAAAATATTCTCAAATTTTAAGATAAAAAATCA
6363383 ATATAAAA
1 ATATAAAA
6363391 GTAATTAGTA
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
36 31 0.89
37 4 0.11
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (36 bp):
ATATAAAATATTCTCAAATTTTAAGATAAAAAATCA
Found at i:6376715 original size:62 final size:62
Alignment explanation
Indices: 6376638--6376804 Score: 271
Period size: 62 Copynumber: 2.7 Consensus size: 62
6376628 CGTGTAATAC
*
6376638 TTCACTCATCTAATTTATAAATGTTACACATTTTGCTGTACACGTACTCATCTAATGTATAA
1 TTCACTCATCTAATTTATAAATGTTACACATTTTGCTATACACGTACTCATCTAATGTATAA
* *
6376700 TTCACTCGTCTAATTTATAAATGTTGCACATTTTGCTATACACGTACTCATCTAATGTATAA
1 TTCACTCATCTAATTTATAAATGTTACACATTTTGCTATACACGTACTCATCTAATGTATAA
* * * *
6376762 TTCACTCATCTAATATACAAATGTTACATATTTTGCTTTACAC
1 TTCACTCATCTAATTTATAAATGTTACACATTTTGCTATACAC
6376805 ATATAATAAT
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 96 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.41
Consensus pattern (62 bp):
TTCACTCATCTAATTTATAAATGTTACACATTTTGCTATACACGTACTCATCTAATGTATAA
Found at i:6379270 original size:6 final size:6
Alignment explanation
Indices: 6379259--6379311 Score: 97
Period size: 6 Copynumber: 8.8 Consensus size: 6
6379249 TTTAAATTTC
*
6379259 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTC ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
6379307 ATTTT
1 ATTTT
6379312 ATTATTTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:6379697 original size:176 final size:175
Alignment explanation
Indices: 6379342--6379792 Score: 576
Period size: 176 Copynumber: 2.5 Consensus size: 175
6379332 TAAAATTCAA
6379342 AAAAAATATTTTT-GAGGAAAAGTTGAAACTATCAA-TTTTCTTTGAAAATAAACTTTTCAAAAA
1 AAAAAATATTTTTGGA-GAAAAGTTGAAACTATCAATTTTTC-TTGAAAATAAACTTTTCAAAAA
* * *
6379405 ATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAGTTTTT
64 ATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTTCAAAAAAAA---TTA
* **
6379470 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAATTTTC
126 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAATTTTC
*
6379520 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAA-TTTTCAAAAAAA
1 AAAAAATATTTTTGGAGAAAAGTTGAAACTATCAATTTTTCTTGAAAATAAACTTTTC-AAAAAA
* * *
6379584 GTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTT-CTCGAAATTAAAGTTTTC-AAAAAAA-TA
65 ---TATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAA-TTTTCAAAAAAAATTA
*
6379646 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTTC
126 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAATTTTC
* * * * *
6379696 AAAAAATATTTTTGG-GAAAAAGTTAAAATTATCAATTTTTCTCGAAATTAAAGTTTTCTAAAAA
1 AAAAAATATTTTTGGAG-AAAAGTTGAAACTATCAATTTTTCTTGAAAATAAACTTTTC-AAAAA
*
6379760 ATATTTTGAGGAGAAA-TTGAAAGTATCAATTTT
64 ATATTTTTAGGA-AAAGTTGAAAGTATCAATTTT
6379793 TCCTGCACAA
Statistics
Matches: 245, Mismatches: 18, Indels: 24
0.85 0.06 0.08
Matches are distributed among these distances:
174 26 0.11
175 4 0.02
176 93 0.38
177 16 0.07
178 48 0.20
179 7 0.03
180 16 0.07
181 35 0.14
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (175 bp):
AAAAAATATTTTTGGAGAAAAGTTGAAACTATCAATTTTTCTTGAAAATAAACTTTTCAAAAAAT
ATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTTCAAAAAAAATTATTTTT
GAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAATTTTC
Found at i:6379793 original size:58 final size:58
Alignment explanation
Indices: 6379342--6379794 Score: 528
Period size: 58 Copynumber: 7.7 Consensus size: 58
6379332 TAAAATTCAA
* * *
6379342 AAAAAATATTTTTGAGGAAAAGTTGAAACTATCAA-TTTTCTTTGAAAATAAACTTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TTGAAATTAAAGTTTTC
* * *
6379400 AAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAGTTTTC
* * *
6379456 AAAAAAAAGTTTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAATTTTC
1 --AAAAAA----TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAGTTTTC
*
6379520 AAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAA-TTTTC
1 AAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAGTTTTC
* * *
6379577 AAAAAAAGTTTTTTTTTAGGAAAAGTTGAAAGTATCAA-TTTTCTCGAAATTAAAGTTTTC
1 -AAAAAA--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAGTTTTC
* * **
6379637 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTTC
1 -AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAGTTTTC
* * *
6379696 AAAAAATATTTTTG-GGAAAAAGTTAAAATTATCAATTTTTCTCGAAATTAAAGTTTTC
1 AAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAGTTTTC
6379754 TAAAAAATA-TTTTGAGGAGAAA-TTGAAAGTATCAATTTTTC
1 -AAAAAATATTTTTGAGGA-AAAGTTGAAAGTATCAATTTTTC
6379795 CTGCACAAAA
Statistics
Matches: 350, Mismatches: 25, Indels: 40
0.84 0.06 0.10
Matches are distributed among these distances:
56 5 0.01
57 36 0.10
58 171 0.49
59 47 0.13
60 37 0.11
61 1 0.00
62 13 0.04
63 35 0.10
64 5 0.01
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAGTTTTC
Found at i:6383814 original size:32 final size:30
Alignment explanation
Indices: 6383767--6383827 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 30
6383757 ATGAAAGATG
6383767 AGGAAAAAAAAAATGA-AAAATAGAGAAAAAA
1 AGGAAAAAAAAAATGAGAAAAT-GA-AAAAAA
6383798 AGGAAAGAAAAAAATGAGAAAATGAAAAAA
1 AGGAAA-AAAAAAATGAGAAAATGAAAAAA
6383828 GATTCAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 11 0.39
32 12 0.43
33 5 0.18
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (30 bp):
AGGAAAAAAAAAATGAGAAAATGAAAAAAA
Found at i:6384650 original size:63 final size:63
Alignment explanation
Indices: 6384512--6384651 Score: 190
Period size: 63 Copynumber: 2.2 Consensus size: 63
6384502 GACGAAACTG
* ** *
6384512 GTGCTGAAAAGCTTATGAATGATGACCAAGTGACAGATGATAAAATTTGTTTTGAAATGGCTA
1 GTGCTGAAAAGCTTATGAACGATGACCAAGTGACAGAACATAAAATTTATTTTGAAATGGCTA
** * * *
6384575 GTATTGAGAAGCTTATGAACGATGACCAAGTGACAGAACATGAAATTTATTTTGAAATGGTTA
1 GTGCTGAAAAGCTTATGAACGATGACCAAGTGACAGAACATAAAATTTATTTTGAAATGGCTA
*
6384638 GTGCTGATAAGCTT
1 GTGCTGAAAAGCTT
6384652 GGTATATAGG
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.31
Consensus pattern (63 bp):
GTGCTGAAAAGCTTATGAACGATGACCAAGTGACAGAACATAAAATTTATTTTGAAATGGCTA
Found at i:6385343 original size:43 final size:42
Alignment explanation
Indices: 6385294--6385399 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 42
6385284 ACCTTTGAAC
*
6385294 TCAAATGAGAAGCTTTGAATTTTTGGATGTGAATCTCCAAAAT
1 TCAAATGAGAAGCTTTGAATTTTTGGATATGAAT-TCCAAAAT
* **
6385337 TCAAATGAAAAGCTTT-AGATTTTTGGATATGAATTCCAAGTT
1 TCAAATGAGAAGCTTTGA-ATTTTTGGATATGAATTCCAAAAT
*
6385379 TGCCAAATGAGAACCTTTGAA
1 T--CAAATGAGAAGCTTTGAA
6385400 AAGCCTTGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
42 8 0.15
43 30 0.57
44 14 0.26
45 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (42 bp):
TCAAATGAGAAGCTTTGAATTTTTGGATATGAATTCCAAAAT
Found at i:6385756 original size:42 final size:42
Alignment explanation
Indices: 6385674--6385986 Score: 325
Period size: 42 Copynumber: 7.5 Consensus size: 42
6385664 AAGATTGTTA
* * * *
6385674 AGGAGTAATTTATTTTT-TAAAGTTATGGTGCCTCTATTTAG
1 AGGAGCAATTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAG
*
6385715 AGGAGCAATTTATTTTTCAAAAGTTGAGGCT-CCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAAGTTGTGG-TGCCTCTGTTTAG
* *
6385757 AGAAGCAATTTA-TTTTC-AAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAG
* *
6385797 AGGAGCAATTTA-TTTTCCAAAGTTGTGGTGCCTCTATTTAG
1 AGGAGCAATTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAG
* * * *
6385838 AGGAGCAATTTACTTTCCAAAAGTCGTGGTACCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAG
* * *
6385880 AGGAGCCATTTATTTTTTC-AAAGTCGTGGTGCCTCTGATTAG
1 AGGAGCAATTTA-TTTTTCAAAAGTTGTGGTGCCTCTGTTTAG
* * * * * *
6385922 AGAAGCCATTTATTTTTTC-AAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCAATTTA-TTTTTCAAAAGTTGTGGTGCCTCTGTTTAG
* *
6385964 AGAAGCCATTTATTTTTCCAAAA
1 AGGAGCAATTTATTTTT-CAAAA
6385987 TCATTGAGCC
Statistics
Matches: 240, Mismatches: 24, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.00
40 35 0.15
41 59 0.25
42 137 0.57
43 8 0.03
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.38
Consensus pattern (42 bp):
AGGAGCAATTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAG
Found at i:6385893 original size:123 final size:123
Alignment explanation
Indices: 6385674--6386077 Score: 402
Period size: 123 Copynumber: 3.2 Consensus size: 123
6385664 AAGATTGTTA
* * * *
6385674 AGGAGTAATTTATTTTTTAAAGTTATGGTGCCTCTATTTAGAGGAGCAATTTATTTTTCAAAAGT
1 AGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTCCAAAAGT
* * * *
6385739 TGAGGCT-CCTCTGTTTAGAGAAGCAATTTATTTTCAAAGTCGTGGTGCCTCTGTTTAG
66 CGTGG-TACCTCTGTTTAGAGGAGCAATTTATTTTCAAAGTCGTGGTGCCTCTGATTAG
* *
6385797 AGGAGCAATTTATTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAAGT
1 AGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTCCAAAAGT
*
6385862 CGTGGTACCTCTGTTTAGAGGAGCCATTTATTTTTTCAAAGTCGTGGTGCCTCTGATTAG
66 CGTGGTACCTCTGTTTAGAGGAGCAATTTA--TTTTCAAAGTCGTGGTGCCTCTGATTAG
* * * * * * *
6385922 AGAAGCCATTTATTTTTTCAAAGTCGTTGAGCCTCTGA-TTAGAGAAGCCATTTATTTTTCCAAA
1 AGGAGCAATTTA-TTTTTCAAAGTTGTGGTGCCTCT-ATTTAGAGGAGCAATTTA-TTTTCCAAA
* * * * * * * * *
6385986 A-TCATTG-AGCCTCTGATTAAAAGAGCTTTATTTATGTTTCAAAGTCGTTGAGCCTCTGCTTAG
63 AGTCGTGGTA-CCTCTGTTTAGAGGAGC--AATTTAT-TTTCAAAGTCGTGGTGCCTCTGATTAG
* *
6386049 AGGAGCCTTTATTTATTTCTCAAAGTTGT
1 AGGAG-C--AATTTATTTTTCAAAGTTGT
6386078 TGAGCTTCTG
Statistics
Matches: 235, Mismatches: 33, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
122 1 0.00
123 83 0.35
125 38 0.16
126 52 0.22
127 38 0.16
128 6 0.03
129 12 0.05
130 5 0.02
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (123 bp):
AGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTCCAAAAGT
CGTGGTACCTCTGTTTAGAGGAGCAATTTATTTTCAAAGTCGTGGTGCCTCTGATTAG
Found at i:6385957 original size:84 final size:84
Alignment explanation
Indices: 6385680--6386067 Score: 352
Period size: 84 Copynumber: 4.7 Consensus size: 84
6385670 GTTAAGGAGT
** * * * * *
6385680 AATTTATTTTTT-AAAGTTATGGTGCCTCTATTTAGAGGAGCAATTTA-TTTTTCAAAAGTTGAG
1 AATTTATTTTTTCAAAGTCGTGGAGCCTCTGTTTAGAGGAGCCATTTATTTTTTC-AAAGTCGTG
*
6385743 GCT-CCTCTGTTTAGAGAAGC
65 G-TGCCTCTGATTAGAGAAGC
* * * *
6385763 AATTTA--TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAGTTGTGG
1 AATTTATTTTTTCAAAGTCGTGGAGCCTCTGTTTAGAGGAGCCATTTATTTTTTCAAAGTCGTGG
*
6385825 TGCCTCT-ATTTAGAGGAGC
66 TGCCTCTGA-TTAGAGAAGC
* *
6385844 AATTTA-CTTTCCAAAAGTCGTGGTA-CCTCTGTTTAGAGGAGCCATTTATTTTTTCAAAGTCGT
1 AATTTATTTTTTC-AAAGTCGTGG-AGCCTCTGTTTAGAGGAGCCATTTATTTTTTCAAAGTCGT
6385907 GGTGCCTCTGATTAGAGAAGC
64 GGTGCCTCTGATTAGAGAAGC
* * * * * * * *
6385928 CATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGAAGCCATTTATTTTTCCAAAATCATTG
1 AATTTATTTTTTCAAAGTCGTGGAGCCTCTGTTTAGAGGAGCCATTTATTTTTTCAAAGTCGTGG
*
6385993 AGCCTCTGATTA-A-AAG-
66 TGCCTCTGATTAGAGAAGC
* * *
6386009 AGCTTTATTTATGTTTCAAAGTCGTTGAGCCTCTGCTTAGAGGAGCC-TTTATTTATTTC
1 A-ATTTA-TT-T-TTTCAAAGTCGTGGAGCCTCTGTTTAGAGGAGCCATTTATTT-TTTC
6386068 TCAAAGTTGT
Statistics
Matches: 261, Mismatches: 29, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
80 1 0.00
81 33 0.13
82 48 0.18
83 42 0.16
84 97 0.37
85 40 0.15
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.39
Consensus pattern (84 bp):
AATTTATTTTTTCAAAGTCGTGGAGCCTCTGTTTAGAGGAGCCATTTATTTTTTCAAAGTCGTGG
TGCCTCTGATTAGAGAAGC
Found at i:6386059 original size:44 final size:42
Alignment explanation
Indices: 6385681--6386098 Score: 306
Period size: 42 Copynumber: 10.0 Consensus size: 42
6385671 TTAAGGAGTA
** * * *
6385681 ATTTATTTTTT-AAAGTTATGGTGCCTCT-ATTTAGAGGAGCA
1 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGA-TTAGAGGAGCC
* * * *
6385722 ATTTA-TTTTTCAAA--AGTTGAGGCTCCTCTGTTTAGAGAAGCA
1 ATTTATTTTTTCAAAGTCGTTGA-G--CCTCTGATTAGAGGAGCC
* * * *
6385764 ATTTA--TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
* * * * *
6385804 ATTTA-TTTTCCAAAGTTGTGGTGCCTCT-ATTTAGAGGAGCA
1 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGA-TTAGAGGAGCC
* * * *
6385845 ATTTA-CTTTCCAAAAGTCGTGGTA-CCTCTGTTTAGAGGAGCC
1 ATTTATTTTTTC-AAAGTCGTTG-AGCCTCTGATTAGAGGAGCC
* * *
6385887 ATTTATTTTTTCAAAGTCGTGGTGCCTCTGATTAGAGAAGCC
1 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
*
6385929 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGAAGCC
1 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
* * * * *
6385971 ATTTATTTTTCCAAAATCATTGAGCCTCTGATTAAAAGAG-C
1 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
*
6386012 -TTTATTTATGTTTCAAAGTCGTTGAGCCTCTGCTTAGAGGAGCC
1 ATTTA-TT-T-TTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
* * *
6386056 -TTTATTTATTTCTCAAAGTTGTTGAGCTTCTGCTTAGAGGAGC
1 ATTTA-TT-TTT-TCAAAGTCGTTGAGCCTCTGATTAGAGGAGC
6386099 TTTGATCAAA
Statistics
Matches: 319, Mismatches: 39, Indels: 35
0.81 0.10 0.09
Matches are distributed among these distances:
39 2 0.01
40 32 0.10
41 60 0.19
42 151 0.47
43 35 0.11
44 39 0.12
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (42 bp):
ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
Found at i:6386235 original size:87 final size:87
Alignment explanation
Indices: 6386127--6386315 Score: 306
Period size: 87 Copynumber: 2.2 Consensus size: 87
6386117 AAAAAACCAA
* * * *
6386127 AAAAATAAAAAAAAATTACCTCTGTTTAGAGGAGCTTTGTTTATGTTTCTCAAAGTCGTTGAGCC
1 AAAATTAAAAAAAAATTACCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAATCGTTGAACC
*
6386192 TCTGCTTAGAGAAGCTTTGATC
66 TCTACTTAGAGAAGCTTTGATC
6386214 AAAATTAAAAAAAAATTACCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAATCGTTGAACC
1 AAAATTAAAAAAAAATTACCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAATCGTTGAACC
* *
6386279 TCTACTTAGAGGAGTTTTGATC
66 TCTACTTAGAGAAGCTTTGATC
*
6386301 AAATTTAAAAAAAAA
1 AAAATTAAAAAAAAA
6386316 AAAACAAAAA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 94 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.34
Consensus pattern (87 bp):
AAAATTAAAAAAAAATTACCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAATCGTTGAACC
TCTACTTAGAGAAGCTTTGATC
Found at i:6386288 original size:45 final size:45
Alignment explanation
Indices: 6386152--6386297 Score: 127
Period size: 45 Copynumber: 3.3 Consensus size: 45
6386142 TTACCTCTGT
* * *
6386152 TTAGAGGAGCTTTGTTTATGTTTCTCAAAGTCGTTGAGCCTCTGC
1 TTAGAGGAGCTTTGTTTATGTTTCTCAAAATCGTTGAACCTCTAC
* * * *** ** *** *
6386197 TTAGAGAAGCTTTGATCAAAATT-AAAAAAAAATT--ACCTCTAT
1 TTAGAGGAGCTTTGTTTATGTTTCTCAAAATCGTTGAACCTCTAC
6386239 TTAGAGGAGCTTTGTTTATGTTTCTCAAAATCGTTGAACCTCTAC
1 TTAGAGGAGCTTTGTTTATGTTTCTCAAAATCGTTGAACCTCTAC
*
6386284 TTAGAGGAGTTTTG
1 TTAGAGGAGCTTTG
6386298 ATCAAATTTA
Statistics
Matches: 70, Mismatches: 28, Indels: 6
0.67 0.27 0.06
Matches are distributed among these distances:
42 22 0.31
43 6 0.09
44 5 0.07
45 37 0.53
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (45 bp):
TTAGAGGAGCTTTGTTTATGTTTCTCAAAATCGTTGAACCTCTAC
Found at i:6386398 original size:187 final size:190
Alignment explanation
Indices: 6386045--6386415 Score: 554
Period size: 187 Copynumber: 1.9 Consensus size: 190
6386035 GAGCCTCTGC
* * * * *
6386045 TTAGAGGAGCCTTTATTTATTTCTCAAAGTTGTTGAGCTTCTGCTTAGAGGAGCTTTGATCAAAA
1 TTAGAGGAGCCTTTATTTATTTCTCAAAATCGTTGAACCTCTACTTAGAGGAGCTTTGATCAAAA
*
6386110 TTAAAAAAAAAAACCAAAAAAATAAAAAAAAATTACCTCTGTTTAGAGGAGCTTTGTTTATGTTT
66 TT---AAAAAAAA-CAAAAAAACAAAAAAAAATTACCTCTGTTTAGAGGAGCTTTGTTTATGTTT
6386175 CTCAAAGTCGTTGAGCCTCTGCTTAGAGAAGCTTTGATCAAAATTAAAAAAAAATTACCTCTAT
127 CTCAAAGTCGTTGAGCCTCTGCTTAGAGAAGCTTTGATCAAAATTAAAAAAAAATTACCTCTAT
* *
6386239 TTAGAGGAG-CTTTGTTTATGTTTCTCAAAATCGTTGAACCTCTACTTAGAGGAGTTTTGATC-A
1 TTAGAGGAGCCTTTATTTA--TTTCTCAAAATCGTTGAACCTCTACTTAGAGGAGCTTTGATCAA
*
6386302 AATT-TAAAAAA-AAAAAAACAAAAAAAAATTACCTCTGTTTAGAGGAGCTTTGTTTATG-TTCT
64 AATTAAAAAAAACAAAAAAACAAAAAAAAATTACCTCTGTTTAGAGGAGCTTTGTTTATGTTTCT
* *
6386364 TAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTTGATCAAAATTAAAAAAAAA
129 CAAAGTCGTTGAGCCTCTGCTTAGAGAAGCTTTGATCAAAATTAAAAAAAAA
6386416 ACAAAAAAAA
Statistics
Matches: 164, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
187 54 0.33
188 46 0.28
190 6 0.04
193 8 0.05
194 14 0.09
195 36 0.22
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (190 bp):
TTAGAGGAGCCTTTATTTATTTCTCAAAATCGTTGAACCTCTACTTAGAGGAGCTTTGATCAAAA
TTAAAAAAAACAAAAAAACAAAAAAAAATTACCTCTGTTTAGAGGAGCTTTGTTTATGTTTCTCA
AAGTCGTTGAGCCTCTGCTTAGAGAAGCTTTGATCAAAATTAAAAAAAAATTACCTCTAT
Found at i:6386402 original size:100 final size:100
Alignment explanation
Indices: 6386220--6386426 Score: 326
Period size: 100 Copynumber: 2.1 Consensus size: 100
6386210 GATCAAAATT
6386220 AAAAAAAAATTACCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAATCGTTGAACCTCTACT
1 AAAAAAAAATTACCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAATCGTTGAACCTCTACT
* *
6386285 TAGAGGAGTTTTGATCAAATTTAAAAAAAAAAAAA
66 TAGAGGAGCTTTGATCAAAATTAAAAAAAAAAAAA
* * * * *
6386320 CAAAAAAAAATTACCTCTGTTTAGAGGAGCTTTGTTTATG-TTCTTAAAGTCGTTGAGCCTCTGC
1 -AAAAAAAAATTACCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAATCGTTGAACCTCTAC
*
6386384 TTAGAGGAGCTTTGATCAAAATTAAAAAAAAAACAA
65 TTAGAGGAGCTTTGATCAAAATTAAAAAAAAAAAAA
6386420 AAAAAAA
1 AAAAAAA
6386427 GTAAAAAAAA
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
99 7 0.07
100 53 0.54
101 38 0.39
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (100 bp):
AAAAAAAAATTACCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAATCGTTGAACCTCTACT
TAGAGGAGCTTTGATCAAAATTAAAAAAAAAAAAA
Found at i:6386600 original size:11 final size:11
Alignment explanation
Indices: 6386579--6386621 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
6386569 GATTATAAAA
6386579 ATTTTTA-TTC
1 ATTTTTATTTC
6386589 ATTTTTATTTC
1 ATTTTTATTTC
6386600 AAATTTTTATTTC
1 --ATTTTTATTTC
*
6386613 ATATTTATT
1 ATTTTTATT
6386622 ATTTTTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 7 0.24
11 11 0.38
13 11 0.38
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTTTTATTTC
Found at i:6386603 original size:23 final size:24
Alignment explanation
Indices: 6386577--6386621 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
6386567 TCGATTATAA
*
6386577 AAATTTTTA-TTCATTTTTATTTC
1 AAATTTTTATTTCATATTTATTTC
6386600 AAATTTTTATTTCATATTTATT
1 AAATTTTTATTTCATATTTATT
6386622 ATTTTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (24 bp):
AAATTTTTATTTCATATTTATTTC
Found at i:6386623 original size:14 final size:13
Alignment explanation
Indices: 6386577--6386625 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
6386567 TCGATTATAA
6386577 AAATTTTTA-TTC
1 AAATTTTTATTTC
6386589 --ATTTTTATTTC
1 AAATTTTTATTTC
6386600 AAATTTTTATTTC
1 AAATTTTTATTTC
*
6386613 ATATTTATTATTT
1 AAATTT-TTATTT
6386626 TTTAATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 7 0.22
11 3 0.09
13 16 0.50
14 6 0.19
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (13 bp):
AAATTTTTATTTC
Found at i:6386637 original size:14 final size:14
Alignment explanation
Indices: 6386589--6386637 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
6386579 ATTTTTATTC
6386589 ATTTTTATTTCA-A
1 ATTTTTATTTCATA
6386602 ATTTTTATTTCAT-
1 ATTTTTATTTCATA
**
6386615 ATTTATTATTTTTTA
1 ATTT-TTATTTCATA
6386630 ATTTTTAT
1 ATTTTTAT
6386638 CTTATAGTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 16 0.52
14 11 0.35
15 4 0.13
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTTTATTTCATA
Found at i:6388623 original size:15 final size:16
Alignment explanation
Indices: 6388598--6388634 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
6388588 AAGTATCAAT
6388598 TTTTTTAAAAAATAAA-
1 TTTTTTAAAAAA-AAAG
6388614 TTTTTT-AAAAAAAAG
1 TTTTTTAAAAAAAAAG
6388629 TTTTTT
1 TTTTTT
6388635 TTTGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 3 0.15
15 11 0.55
16 6 0.30
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
TTTTTTAAAAAAAAAG
Found at i:6388635 original size:16 final size:16
Alignment explanation
Indices: 6388595--6388635 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
6388585 TCAAAGTATC
6388595 AATTTTTTTAAAAAAT
1 AATTTTTTTAAAAAAT
*
6388611 AAATTTTTTAAAAAA-
1 AATTTTTTTAAAAAAT
6388626 AAGTTTTTTT
1 AA-TTTTTTT
6388636 TTGAAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
AATTTTTTTAAAAAAT
Found at i:6388636 original size:17 final size:17
Alignment explanation
Indices: 6388597--6388647 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
6388587 AAAGTATCAA
6388597 TTTTTTTAAAAAATAA--
1 TTTTTTTAAAAAA-AAGT
*
6388613 ATTTTTTAAAAAAAAGT
1 TTTTTTTAAAAAAAAGT
**
6388630 TTTTTTTTGAAAAAAGT
1 TTTTTTTAAAAAAAAGT
6388647 T
1 T
6388648 GAAAGTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 2 0.07
16 12 0.41
17 15 0.52
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
TTTTTTTAAAAAAAAGT
Found at i:6388693 original size:118 final size:115
Alignment explanation
Indices: 6388493--6389019 Score: 472
Period size: 118 Copynumber: 4.5 Consensus size: 115
6388483 TATTTCCTTT
* * *
6388493 AAATAAAA-TTCCAAAAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATA
1 AAATAAAATTTTC-AAAAAATATTTTTGGA-AAAAAGTTGAAAGTATCAATTTTTCTTAAAAATA
* * * *
6388556 AACTTTCCAAAAGATATTTTTGA-G-AAAGTTCAAAGTATCAATTTTTTTAAA
64 AATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTT-AA
* * * * *
6388607 AAATAAATTTTTTAAAAAAAAGTTTTTTTTTGAAAAAAGTTGAAAGTATAAATTTTTCTTAAAAA
1 AAATAAA-ATTTT-CAAAAAA--TATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAA
* * *
6388672 TAAATTTTCAAAAAAAAATTTTTTTTTTGAGGAAAAGTTGTAAGTATCAATTTTTCTTGA
62 TAAATTTTC--AAAAAAA---TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTT-TTAA
** * ** *
6388732 AAAT-AAGCTTTCCAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
1 AAATAAAATTTTCAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA
* * * **
6388796 TTTTCAAAAAAAGTTTTTTTTTAGGAAATGTTGAAAGTATCAATTTTTCTCCA
66 TTTTCAAAAAAA--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTT-TTAA
* * *
6388849 AATTAAAATTTTCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAA
1 AAATAAAATTTTCAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA
* * * * **
6388914 TTTTCAAAAAATTTTTTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTCGA
66 TTTTCAAAAAA--ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-TTTAA
* * ** *
6388967 AATTAAAGTTTTCTAAAAAATA-TTTTGGGGAGAAGTTGAAAGTATCAATTTTT
1 AAATAAAATTTTC-AAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTT
6389020 TCTGTACAAA
Statistics
Matches: 348, Mismatches: 46, Indels: 34
0.81 0.11 0.08
Matches are distributed among these distances:
114 7 0.02
116 8 0.02
117 38 0.11
118 189 0.54
119 10 0.03
120 50 0.14
122 5 0.01
123 11 0.03
124 3 0.01
125 25 0.07
126 2 0.01
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.39
Consensus pattern (115 bp):
AAATAAAATTTTCAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA
TTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTAA
Found at i:6388794 original size:238 final size:235
Alignment explanation
Indices: 6388507--6389018 Score: 656
Period size: 238 Copynumber: 2.2 Consensus size: 235
6388497 AAAATTCCAA
* * * *
6388507 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAACTTTC-CAAAAGAT
1 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAACTTTCAAAAAAGAT
* * *
6388571 ATTTTTGA-GAAA-GTTCAAAGTATCAATTTTTTTAAAAAATAAATTTTTTAAAAAAAAGTTTTT
66 ATTTTTGAGGAAATGTTCAAAGTATCAATTTTTCTAAAAAATAAA-ATTTT-AAAAAAA--TATT
*
6388634 TTTTGAAAAAAGTTGAAAGTATAAATTTTTCTTAAAAATAAATTTTCAAAAAAAAATTTTTTTTT
127 TTTGGAAAAAAGTTGAAAGTATAAATTTTTCTTAAAAATAAATTTTC---AAAAAATTTTTTTTT
* * * *
6388699 TGAGGAAAAGTTGTAAGTATCAATTTTTCTTGAAAAT-AAGCTTTCC
189 TGAAGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAGCTTTCC
* *
6388745 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAGT
1 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAACTTTC-AAAAAAGA
* * * ** * *
6388810 TTTTTTTTAGGAAATGTTGAAAGTATCAATTTTTCTCCAAATTAAAATTTTCAAAAAATATTTTT
65 TATTTTTGAGGAAATGTTCAAAGTATCAATTTTTCTAAAAAATAAAATTTTAAAAAAATATTTTT
* * *
6388875 GGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAATTTTCAAAAAATTTTTTTTTTGAAGA
130 GGAAAAAAGTTGAAAGTATAAATTTTTCTTAAAAATAAATTTTCAAAAAATTTTTTTTTTGAAGA
* * *
6388940 AAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCT
195 AAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAGCTTTCC
*
6388981 AAAAA-ATATTTTGGGGAGAAGTTGAAAGTATCAATTTT
1 AAAAATAT-TTTTGGGGAAAAGTTGAAAGTATCAATTTT
6389019 TTCTGTACAA
Statistics
Matches: 240, Mismatches: 28, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
235 49 0.20
236 41 0.17
238 98 0.41
240 18 0.08
241 8 0.03
242 26 0.11
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (235 bp):
AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAACTTTCAAAAAAGAT
ATTTTTGAGGAAATGTTCAAAGTATCAATTTTTCTAAAAAATAAAATTTTAAAAAAATATTTTTG
GAAAAAAGTTGAAAGTATAAATTTTTCTTAAAAATAAATTTTCAAAAAATTTTTTTTTTGAAGAA
AAGTTGAAAGTATCAATTTTCCTCGAAAATAAAGCTTTCC
Found at i:6392578 original size:24 final size:26
Alignment explanation
Indices: 6392539--6392592 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
6392529 TGGGCTTTTA
*
6392539 TTTTTATTTTCATTATTTAAT-ATAT
1 TTTTTATTTTCATTATCTAATAATAT
* *
6392564 TTTTTATTTT-TTTATCTATTAATAT
1 TTTTTATTTTCATTATCTAATAATAT
6392589 TTTT
1 TTTT
6392593 ATTATTTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (26 bp):
TTTTTATTTTCATTATCTAATAATAT
Found at i:6392593 original size:24 final size:24
Alignment explanation
Indices: 6392537--6392633 Score: 85
Period size: 24 Copynumber: 4.0 Consensus size: 24
6392527 AATGGGCTTT
* *
6392537 TATTTTTATTTTCA-TTATTTAATA
1 TATTTTTATTTT-ATTTATCTATTA
6392561 TATTTTTTATTTT-TTTATCTATTAA
1 TA-TTTTTATTTTATTTATCTATT-A
*
6392586 TATTTTTA--TTATTTATCTATTTT
1 TATTTTTATTTTATTTATCTA-TTA
6392609 TATTATTTATTATTATTTATCTATT
1 TATT-TTTATT-TTATTTATCTATT
6392634 TCTTTTATTT
Statistics
Matches: 61, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
22 2 0.03
23 12 0.20
24 21 0.34
25 13 0.21
26 2 0.03
27 11 0.18
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (24 bp):
TATTTTTATTTTATTTATCTATTA
Found at i:6392600 original size:23 final size:23
Alignment explanation
Indices: 6392564--6392633 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 23
6392554 TTTAATATAT
*
6392564 TTTTTATTTTTTTATCTATTAATA
1 TTTTTA-TTATTTATCTATTAATA
*
6392588 TTTTTATTATTTATCTATTTTTATTA
1 TTTTTATTATTTATCTA---TTAATA
6392614 TTTATTATTATTTATCTATT
1 TTT-TTATTATTTATCTATT
6392634 TCTTTTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
23 10 0.25
24 8 0.20
26 8 0.20
27 14 0.35
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTTATTATTTATCTATTAATA
Found at i:6392606 original size:17 final size:16
Alignment explanation
Indices: 6392536--6392634 Score: 87
Period size: 17 Copynumber: 5.9 Consensus size: 16
6392526 CAATGGGCTT
*
6392536 TTATTTTTATT-TTCA
1 TTATTTTTATTATTTA
*
6392551 TTATTTAATATATTTTTTA
1 TTATTT--T-TATTATTTA
6392570 TT-TTTTTATCTA-TTA
1 TTATTTTTAT-TATTTA
*
6392585 ATATTTTTATTATTTA
1 TTATTTTTATTATTTA
6392601 TCTATTTTTATTATTTA
1 T-TATTTTTATTATTTA
6392618 TTATTATTTATCTATTT
1 TTATT-TTTAT-TATTT
6392635 CTTTTATTTA
Statistics
Matches: 70, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
15 15 0.21
16 16 0.23
17 22 0.31
18 12 0.17
19 5 0.07
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTTTTATTATTTA
Found at i:6392634 original size:44 final size:41
Alignment explanation
Indices: 6392536--6392676 Score: 119
Period size: 42 Copynumber: 3.3 Consensus size: 41
6392526 CAATGGGCTT
* *
6392536 TTATTT-TTATTTTCATTATTTAATATATTTTTTATTTTTTTA
1 TTATTTATTATTTTTATTATTT-ATCTA-TTTTTATTTTTTTA
*
6392578 TCTA-TTAATATTTTTATTATTTATCTATTTTTATTATTTATTA
1 T-TATTTATTATTTTTATTATTTATCTATTTTTATT-TTT-TTA
* *
6392621 TTATTTATCTATTTCTT-TTATTTATCTAATTTT-TTTTGTTA
1 TTATTTAT-TATTT-TTATTATTTATCTATTTTTATTTTTTTA
*
6392662 TCTATTAATATATTT
1 T-TATTTAT-TATTT
6392677 ATCTTTTTAT
Statistics
Matches: 83, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
41 12 0.14
42 25 0.30
43 24 0.29
44 20 0.24
45 2 0.02
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.70
Consensus pattern (41 bp):
TTATTTATTATTTTTATTATTTATCTATTTTTATTTTTTTA
Found at i:6392640 original size:23 final size:24
Alignment explanation
Indices: 6392559--6392642 Score: 82
Period size: 23 Copynumber: 3.4 Consensus size: 24
6392549 CATTATTTAA
* *
6392559 TATATTTTTTATTTTTTTATCTATT
1 TATATTTATTA-TTATTTATCTATT
*
6392584 AATATTT-TTATTATTTATCTATTTT
1 TATATTTATTATTATTTATCTA--TT
6392609 TATTATTTATTATTATTTATCTATT
1 TA-TATTTATTATTATTTATCTATT
*
6392634 TCT-TTTATT
1 TATATTTATT
6392643 TATCTAATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
23 16 0.31
24 4 0.08
25 12 0.24
26 5 0.10
27 14 0.27
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (24 bp):
TATATTTATTATTATTTATCTATT
Found at i:6392640 original size:30 final size:26
Alignment explanation
Indices: 6392586--6392643 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 26
6392576 TATCTATTAA
6392586 TATTTTTATTATTTATCTATTTTTAT
1 TATTTTTATTATTTATCTATTTTTAT
6392612 TATTTATTATTATTTATCTATTTCTT-T
1 TATTT-TTATTATTTATCTATTT-TTAT
6392639 TATTT
1 TATTT
6392644 ATCTAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
26 5 0.17
27 23 0.77
28 2 0.07
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.72
Consensus pattern (26 bp):
TATTTTTATTATTTATCTATTTTTAT
Found at i:6392641 original size:17 final size:16
Alignment explanation
Indices: 6392586--6392667 Score: 70
Period size: 17 Copynumber: 5.2 Consensus size: 16
6392576 TATCTATTAA
6392586 TATTTTTATTATTTATC
1 TATTTTT-TTATTTATC
6392603 TATTTTTATTATTTAT-
1 TATTTTT-TTATTTATC
6392619 TA-----TTATTTATC
1 TATTTTTTTATTTATC
6392630 TATTTCTTTTATTTATC
1 TATTT-TTTTATTTATC
6392647 TAATTTTTTT-TGTTATC
1 T-ATTTTTTTAT-TTATC
6392664 TATT
1 TATT
6392668 AATATATTTA
Statistics
Matches: 56, Mismatches: 0, Indels: 19
0.75 0.00 0.25
Matches are distributed among these distances:
10 8 0.14
11 2 0.04
16 6 0.11
17 36 0.64
18 4 0.07
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.71
Consensus pattern (16 bp):
TATTTTTTTATTTATC
Found at i:6392682 original size:44 final size:40
Alignment explanation
Indices: 6392570--6392688 Score: 109
Period size: 44 Copynumber: 2.8 Consensus size: 40
6392560 ATATTTTTTA
*
6392570 TTTTTTTATCTATTA-ATATTTT-TATTATTTATCTATTT
1 TTTTTTTATCTATTATATATTTTCTTTTATTTATCTATTT
*
6392608 TTATTATTTAT-TATTATTTATCTATTTCTTTTATTTATCTAATTT
1 TT-TT-TTTATCTATTA--TATAT-TTTCTTTTATTTATCT-ATTT
6392653 TTTTTGTTATCTATTAATATATTTATCTTTTTATTT
1 TTTTT-TTATCTATT-ATATATTT-TC-TTTTATTT
6392689 TGATTAATTT
Statistics
Matches: 65, Mismatches: 3, Indels: 19
0.75 0.03 0.22
Matches are distributed among these distances:
38 2 0.03
39 7 0.11
40 5 0.08
42 3 0.05
43 6 0.09
44 23 0.35
45 18 0.28
46 1 0.02
ACGTcount: A:0.24, C:0.06, G:0.01, T:0.70
Consensus pattern (40 bp):
TTTTTTTATCTATTATATATTTTCTTTTATTTATCTATTT
Found at i:6393547 original size:17 final size:16
Alignment explanation
Indices: 6393527--6393609 Score: 51
Period size: 17 Copynumber: 4.7 Consensus size: 16
6393517 TTTTTTTTCT
6393527 TTATTTATTTATTATTA
1 TTATTTATTT-TTATTA
*
6393544 TTATATTAAAATTGTTTAATA
1 TTAT-TT---ATT-TTTATTA
6393565 TT-TTTATTTTTATTTA
1 TTATTTATTTTTA-TTA
* *
6393581 TTTTTTATTTTATTTTA
1 TTATTTATTTT-TATTA
6393598 TTATTTTATTTT
1 TTA-TTTATTTT
6393610 CTTTAAATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
15 4 0.08
16 7 0.13
17 17 0.32
18 11 0.21
19 2 0.04
20 1 0.02
21 10 0.19
22 1 0.02
ACGTcount: A:0.27, C:0.00, G:0.01, T:0.72
Consensus pattern (16 bp):
TTATTTATTTTTATTA
Found at i:6393603 original size:13 final size:12
Alignment explanation
Indices: 6393566--6393609 Score: 65
Period size: 13 Copynumber: 3.8 Consensus size: 12
6393556 TGTTTAATAT
6393566 TTTTA-TTTTTA
1 TTTTATTTTTTA
6393577 -TTTATTTTTTA
1 TTTTATTTTTTA
6393588 TTTTATTTTATTA
1 TTTTATTTT-TTA
6393601 TTTTATTTT
1 TTTTATTTT
6393610 CTTTAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.13
11 6 0.20
12 8 0.27
13 12 0.40
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:6393614 original size:17 final size:16
Alignment explanation
Indices: 6393565--6393614 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 16
6393555 TTGTTTAATA
6393565 TTTTTATTTTTATTTAT
1 TTTTTA-TTTTATTTAT
6393582 TTTTTATTTTATTTTAT
1 TTTTTATTTTA-TTTAT
*
6393599 TATTTTATTTTCTTTA
1 T-TTTTATTTTATTTA
6393615 AATAAAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 5 0.17
17 16 0.53
18 9 0.30
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTATTTTATTTAT
Found at i:6393689 original size:58 final size:56
Alignment explanation
Indices: 6393627--6394014 Score: 365
Period size: 58 Copynumber: 6.7 Consensus size: 56
6393617 TAAAATTCAA
*
6393627 AAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTTTC
1 AAAAAAA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGTTTTC
* * * *
6393685 AAAAAATATTTTTG-GAAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAGTTTTC
1 AAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTC
* * * *
6393741 AAAAATAGATTTTTGAGAAAAAGTTGAAAGTGA--ATTTTTTTCTT-AGAAACAAGTTTTC
1 AAAAA-A-ATTTTTGAGGAAAAGTTGAAAGT-ATCA-ATTTTCCTTGA-AAATAAGTTTTC
* * *
6393799 AAAAATGAATTTTTGAGAAAAAGTTGAAAGTATCAAATTTCCTTGAAAATAAGCTTTC
1 AAAAA--AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTC
* * * *
6393857 AAAAATGGATTTTTAAGGAAAAGTTGAAAGTATCAATTTT-CTTTAGAAACAAGTTTTC
1 AAAAA--AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATAAGTTTTC
* * * * * *
6393915 AAAAGTGAATTTTTGACGAAAAGTTAAAAGTATCAATTTTTCTCGAAATTAAAG-TTTC
1 AAAA--AAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGTTTTC
*
6393973 AAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAT-TTTTGAG-GAAAAGTTGAAAGTATCAATTTTCC
6394015 CTGCACAAAA
Statistics
Matches: 278, Mismatches: 35, Indels: 34
0.80 0.10 0.10
Matches are distributed among these distances:
56 15 0.05
57 50 0.18
58 202 0.73
59 11 0.04
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.36
Consensus pattern (56 bp):
AAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTC
Found at i:6393744 original size:116 final size:113
Alignment explanation
Indices: 6393622--6394014 Score: 429
Period size: 116 Copynumber: 3.4 Consensus size: 113
6393612 TTAAATAAAA
* * *
6393622 TTCAAAAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATAAATTTTTCA
1 TTCAAAAAAAGA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAA-CAAGTTTTCA
* *
6393686 AAAA-ATATTTTTGGAAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAGTT
63 AAAATA-ATTTTTGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAG-T
* * * *
6393738 TTCAAAAATAGATTTTTGAGAAAAAGTTGAAAGTGA--ATTTTTTTCTTAGAAACAAGTTTTCAA
1 TTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGT-ATCA-ATTTTCCTTAGAAACAAGTTTTCAA
* *
6393801 AAATGAATTTTTGAGAAAAAGTTGAAAGTATCAAATTTCCTTGAAAATAAGCT
64 AAAT-AATTTTTG-GAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAG-T
** * *
6393854 TTCAAAAATGGATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTAGAAACAAGTTTTCAAAA
1 TTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAACAAGTTTTCAAAA
* * * *
6393919 GTGAATTTTT-GACGAAAAGTTAAAAGTATCAATTTTTCTCGAAATTAAAGT
66 AT-AATTTTTGGA--AAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAGT
*
6393970 TTCAAAAAAATATTTTT-AGAGAAAAGTTGAAAGTATCAATTTTCC
1 TTCAAAAAAAGATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCC
6394015 CTGCACAAAA
Statistics
Matches: 237, Mismatches: 28, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
114 15 0.06
115 41 0.17
116 177 0.75
117 4 0.02
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.36
Consensus pattern (113 bp):
TTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAACAAGTTTTCAAAA
ATAATTTTTGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGT
Found at i:6393957 original size:174 final size:170
Alignment explanation
Indices: 6393627--6394014 Score: 443
Period size: 174 Copynumber: 2.2 Consensus size: 170
6393617 TAAAATTCAA
* **
6393627 AAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTTTCAAAAAAT
1 AAAAAAA-TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGCTTTCAAAAAAT
*
6393692 ATTTTTGGAAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAGTTTTCAAAAATAGATTTTTGA
65 ATTTTTGGAAAAAGTTGAAAGTACCAATTTTTCTTAAAAACAAGTTTTCAAAAATAGATTTTTGA
* * *
6393757 GAAAAAGTTGAAAGTGAATTTTTTTCTTAGAAA-CAAGTTTTC
130 GAAAAAGTTAAAAGTGAATATTTTTC-TAGAAATAAAG-TTTC
*
6393799 AAAAATGAATTTTTGAGAAAAAGTTGAAAGTATCAAATTTCCTTGAAAAT-AAGCTTTC-AAAAA
1 AAAAA--AATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGCTTTCAAAAAA
* * *
6393862 TGGATTTTTAAGG-AAAAGTTGAAAGTATCAA-TTTTCTTTAGAAACAAGTTTTCAAAAGT-GAA
64 T--ATTTTT--GGAAAAAGTTGAAAGTACCAATTTTTC-TTAAAAACAAGTTTTCAAAAATAG-A
*
6393924 TTTTTGACG-AAAAGTTAAAAGT--ATCAATTTTTCTCGAAATTAAAGTTTC
123 TTTTTGA-GAAAAAGTTAAAAGTGAAT--ATTTTTCTAGAAA-TAAAGTTTC
*
6393973 AAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAT-TTTTGAGA-AAAAGTTGAAAGTATCAATTTTCC
6394015 CTGCACAAAA
Statistics
Matches: 187, Mismatches: 14, Indels: 28
0.82 0.06 0.12
Matches are distributed among these distances:
171 6 0.03
172 16 0.09
173 63 0.34
174 96 0.51
175 6 0.03
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.36
Consensus pattern (170 bp):
AAAAAAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGCTTTCAAAAAATA
TTTTTGGAAAAAGTTGAAAGTACCAATTTTTCTTAAAAACAAGTTTTCAAAAATAGATTTTTGAG
AAAAAGTTAAAAGTGAATATTTTTCTAGAAATAAAGTTTC
Found at i:6401277 original size:53 final size:52
Alignment explanation
Indices: 6401215--6401329 Score: 133
Period size: 53 Copynumber: 2.2 Consensus size: 52
6401205 AGAAAATTGG
* * ** * *
6401215 ATATTTCAACCCTTTCTTTTAATCATTTGAAATTTC-TTTAAAAGGAAATATTA
1 ATATTTCAACCCATTCCTCAAAACATTTGAAA-TTCATTGAAAA-GAAATATTA
* *
6401268 ATATTTCAACCCATTCCTCAAAACTTTTGAAATTCATTGAAAAGAAATATTG
1 ATATTTCAACCCATTCCTCAAAACATTTGAAATTCATTGAAAAGAAATATTA
6401320 ATATTTCAAC
1 ATATTTCAAC
6401330 TCTTCCCTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
52 21 0.40
53 32 0.60
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (52 bp):
ATATTTCAACCCATTCCTCAAAACATTTGAAATTCATTGAAAAGAAATATTA
Found at i:6401459 original size:57 final size:56
Alignment explanation
Indices: 6401349--6401460 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 56
6401339 TAATTTTGAA
* *
6401349 AAAAATATTTTTTTTGTTTAAGGAAAATTTAATACTTCAATTTTTCCTTAAATTTC
1 AAAAATATTTTTTTTATTTAAGGAAAATTTAATACTTCAATTTTTCCTAAAATTTC
* * * *
6401405 AAAATTATTTTTTTTATTTAAGGAAAATTTGATA-TTTAACTTTTTTCTCAAAATTT
1 AAAAATATTTTTTTTATTTAAGGAAAATTTAATACTTCAA-TTTTTCCT-AAAATTT
6401461 TTATTTAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 4 0.08
56 38 0.79
57 6 0.12
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (56 bp):
AAAAATATTTTTTTTATTTAAGGAAAATTTAATACTTCAATTTTTCCTAAAATTTC
Found at i:6403133 original size:6 final size:6
Alignment explanation
Indices: 6403122--6403149 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6403112 TACAGTGAAA
6403122 AGCTTG AGCTTG AGCTTG AGCTTG AGCT
1 AGCTTG AGCTTG AGCTTG AGCTTG AGCT
6403150 CAAGCTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (6 bp):
AGCTTG
Found at i:6403155 original size:18 final size:18
Alignment explanation
Indices: 6403122--6403156 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6403112 TACAGTGAAA
**
6403122 AGCTTGAGCTTGAGCTTG
1 AGCTTGAGCTCAAGCTTG
6403140 AGCTTGAGCTCAAGCTT
1 AGCTTGAGCTCAAGCTT
6403157 CACTTTTAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (18 bp):
AGCTTGAGCTCAAGCTTG
Found at i:6420421 original size:1 final size:1
Alignment explanation
Indices: 6420415--6420540 Score: 54
Period size: 1 Copynumber: 126.0 Consensus size: 1
6420405 TGATTCAAGG
** ** * * ** ** ** *
6420415 AAAAAAAATTAAAAAAAAAAAATGAAAGAAAAAAATAAAAAAATGAAAAAAATGAAGGAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * *
6420480 AAAAAGAAAAAAACAAAAAAAAAGAGAAAAAAAAAAGAAAAAGAGAAACAAAAATAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6420541 GAAGAAAACA
Statistics
Matches: 88, Mismatches: 37, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 88 1.00
ACGTcount: A:0.83, C:0.02, G:0.10, T:0.06
Consensus pattern (1 bp):
A
Found at i:6420430 original size:9 final size:9
Alignment explanation
Indices: 6420416--6420511 Score: 65
Period size: 9 Copynumber: 10.8 Consensus size: 9
6420406 GATTCAAGGA
*
6420416 AAAAAAATT
1 AAAAAAATG
6420425 AAAAAAA--
1 AAAAAAATG
*
6420432 AAAAATGAAAG
1 AAAAA--AATG
6420443 AAAAAAAT-
1 AAAAAAATG
6420451 AAAAAAATG
1 AAAAAAATG
6420460 AAAAAAATG
1 AAAAAAATG
**
6420469 AAGGAAA-G
1 AAAAAAATG
*
6420477 AAAAAAAAG
1 AAAAAAATG
**
6420486 AAAAAAACA
1 AAAAAAATG
*
6420495 AAAAAAAAG
1 AAAAAAATG
6420504 AGAAAAAA
1 A-AAAAAA
6420512 AAAAGAAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
7 5 0.07
8 14 0.20
9 41 0.58
10 6 0.08
11 5 0.07
ACGTcount: A:0.82, C:0.01, G:0.10, T:0.06
Consensus pattern (9 bp):
AAAAAAATG
Found at i:6420446 original size:17 final size:16
Alignment explanation
Indices: 6420426--6420548 Score: 88
Period size: 17 Copynumber: 7.2 Consensus size: 16
6420416 AAAAAAATTA
6420426 AAAAAAAAAAATGAAAG
1 AAAAAAAAAAA-GAAAG
6420443 AAAAAAATAAAA-AAATG
1 AAAAAAA-AAAAGAAA-G
* *
6420460 AAAAAAATGAAGGAAAG
1 AAAAAAA-AAAAGAAAG
* *
6420477 AAAAAAAAGAAAAAAAC
1 AAAAAAAA-AAAGAAAG
* *
6420494 AAAAAAAAAGAGAAAAA
1 AAAAAAAAAAAG-AAAG
*
6420511 AAAAAGAAAAAGAGAAAC
1 AAAAA-AAAAA-AGAAAG
6420529 AAAAATAAAAAAG-AAG
1 AAAAA-AAAAAAGAAAG
6420545 AAAA
1 AAAA
6420549 CAATGAATGA
Statistics
Matches: 86, Mismatches: 13, Indels: 15
0.75 0.11 0.13
Matches are distributed among these distances:
16 11 0.13
17 49 0.57
18 24 0.28
19 2 0.02
ACGTcount: A:0.82, C:0.02, G:0.12, T:0.04
Consensus pattern (16 bp):
AAAAAAAAAAAGAAAG
Found at i:6420464 original size:35 final size:32
Alignment explanation
Indices: 6420415--6420548 Score: 103
Period size: 33 Copynumber: 4.1 Consensus size: 32
6420405 TGATTCAAGG
**
6420415 AAAAAAAATTAAAAAAAAAAAATGAAAGAAAAA
1 AAAAAAAAAGAAAAAAAAAAAA-GAAAGAAAAA
** *
6420448 AATAAAAAAATGAAAAAAATGAAGGAAAGAAAAA
1 AA-AAAAAAA-GAAAAAAAAAAAAGAAAGAAAAA
*
6420482 AAAGAAAAAA-ACAAAAAAAAAGAGAAA-AAAAA
1 AAA-AAAAAAGA-AAAAAAAAAAAGAAAGAAAAA
* * *
6420514 AAGAAAAAGAGAAACAAAAATAAA-AAAGAAGAA
1 AA-AAAAAAAGAAA-AAAAAAAAAGAAAGAAAAA
6420547 AA
1 AA
6420549 CAATGAATGA
Statistics
Matches: 80, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
32 18 0.22
33 29 0.36
34 24 0.30
35 9 0.11
ACGTcount: A:0.82, C:0.01, G:0.11, T:0.05
Consensus pattern (32 bp):
AAAAAAAAAGAAAAAAAAAAAAGAAAGAAAAA
Found at i:6422094 original size:14 final size:15
Alignment explanation
Indices: 6422077--6422105 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6422067 TTCAACCAAA
6422077 ATTTTTT-TTTTTTT
1 ATTTTTTCTTTTTTT
6422091 ATTTTTTCTTTTTTT
1 ATTTTTTCTTTTTTT
6422106 GATTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.07, C:0.03, G:0.00, T:0.90
Consensus pattern (15 bp):
ATTTTTTCTTTTTTT
Found at i:6422252 original size:195 final size:197
Alignment explanation
Indices: 6421890--6422252 Score: 470
Period size: 196 Copynumber: 1.8 Consensus size: 197
6421880 GAAATTCTTA
* *
6421890 TTATTTTTTTTTATTTTTAGAAAGAAAATAATATGATAATTATTTTTTATTGAAATTTCATTTAA
1 TTATTTTTTCTTATTTTTAGAAAGAAAATAATAT-ATAATTATTTGTTATTGAAATTT-ATTTAA
* * * * * *
6421955 ATTCTTTCACCATTTGGGACAAATTTAAATAAATTTTTCACCTAAAAATTTCTTAGGAATTTACC
64 ATTATTCCACCATTTAGAACAAATTTAAATAAATTTCTCACCTAAAAATTTCTTAGAAATTTACC
* * *
6422020 ATTTGAAATTTCTAAAAAATCTCATCATTAGATAATTATCAAATATTTTCAACCAAAATTTTTTT
129 ATTTAAAATTTCTAAAAAATCTCACCATTAAATAATTATCAAATATTTTCAACCAAAATTTTTTT
6422085 TTTT
194 TTTT
**
6422089 TTATTTTTTCTT-TTTTT-GATTGAAAATAA-ATATTAATTA-TTGTTATTGAAACTTT-TTCTA
1 TTATTTTTTCTTATTTTTAGAAAGAAAATAATATA-TAATTATTTGTTATTGAAA-TTTATT-TA
*
6422149 AATTATTCCACCATTTAGAACAAATTTAAATAAAATTTCTCACCTAAGAATTT-TATAGAAATTT
63 AATTATTCCACCATTTAGAACAAATTTAAAT-AAATTTCTCACCTAAAAATTTCT-TAGAAATTT
* *
6422213 ACCATTTAAAATTTCTATAAATTC-CACCATTAAATAATTA
126 ACCATTTAAAATTTCTAAAAAATCTCACCATTAAATAATTA
6422253 ATATTTTATT
Statistics
Matches: 143, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
194 2 0.01
195 56 0.39
196 59 0.41
197 10 0.07
198 5 0.03
199 11 0.08
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (197 bp):
TTATTTTTTCTTATTTTTAGAAAGAAAATAATATATAATTATTTGTTATTGAAATTTATTTAAAT
TATTCCACCATTTAGAACAAATTTAAATAAATTTCTCACCTAAAAATTTCTTAGAAATTTACCAT
TTAAAATTTCTAAAAAATCTCACCATTAAATAATTATCAAATATTTTCAACCAAAATTTTTTTTT
TT
Found at i:6423244 original size:13 final size:13
Alignment explanation
Indices: 6423207--6423253 Score: 62
Period size: 13 Copynumber: 3.6 Consensus size: 13
6423197 ACCTAGAAGA
6423207 AAATAAAATATATAT
1 AAATAAAAT-TA-AT
6423222 AAAT--AATTAAT
1 AAATAAAATTAAT
6423233 AAATAAAATTAAT
1 AAATAAAATTAAT
6423246 AAATAAAA
1 AAATAAAA
6423254 GGTAATTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.20
12 2 0.07
13 18 0.60
15 4 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAAAATTAAT
Found at i:6423576 original size:41 final size:41
Alignment explanation
Indices: 6423521--6423775 Score: 258
Period size: 41 Copynumber: 6.2 Consensus size: 41
6423511 GACTTTGAGA
* *
6423521 AAAAT-AAATGCTCCTCTAAGCAGAAGCACCATAACTTTTG
1 AAAATAAAATGCTCCTCTAAACAGAAGCACCACAACTTTTG
* *
6423561 AAAATAAAAGGCTCCTCTAAACAG-AG-ACTCAATAACTTTTG
1 AAAATAAAATGCTCCTCTAAACAGAAGCAC-C-ACAACTTTTG
*
6423602 AAAATTAAAATGCTCCTCTAAATAG-AGCTACCACAA-TTTTG
1 AAAA-TAAAATGCTCCTCTAAACAGAAGC-ACCACAACTTTTG
* **
6423643 AAAAGTAAAATGCTCCTTTAAACA-AAGGCACCACAACTTTAA
1 AAAA-TAAAATGCTCCTCTAAACAGAA-GCACCACAACTTTTG
*
6423685 AAAATAAAATACTCCTCTAAACA-AATGCACCACAA-TTTTGG
1 AAAATAAAATGCTCCTCTAAACAGAA-GCACCACAACTTTT-G
* * *
6423726 AAAATAAAATGCTCCTCTAAATAGAGGCATCACAAC-TTTG
1 AAAATAAAATGCTCCTCTAAACAGAAGCACCACAACTTTTG
6423766 AAAAATAAAA
1 -AAAATAAAA
6423776 GACTCATTGA
Statistics
Matches: 183, Mismatches: 19, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.01
40 12 0.07
41 133 0.73
42 33 0.18
43 1 0.01
44 2 0.01
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.24
Consensus pattern (41 bp):
AAAATAAAATGCTCCTCTAAACAGAAGCACCACAACTTTTG
Found at i:6423717 original size:82 final size:80
Alignment explanation
Indices: 6423519--6423780 Score: 292
Period size: 82 Copynumber: 3.2 Consensus size: 80
6423509 ATGACTTTGA
* * * *
6423519 GAAAAAT-AAATGCTCCTCTAAGCAGAAGCACCATAACTTTTGAAAATAAAAGGCTCCTCTAAAC
1 GAAAAATAAAATACTCCTCTAAACA-AAGCACCACAA-TTTTGAAAATAAAATGCTCCTCTAAAC
* * * *
6423583 AGAGACTCAATAACTTTT
64 AGAGGCACCACAAC-TTT
* * * * *
6423601 GAAAATTAAAATGCTCCTCTAAATAGAGCTACCACAATTTTGAAAAGTAAAATGCTCCTTTAAAC
1 GAAAAATAAAATACTCCTCTAAACAAAGC-ACCACAATTTTGAAAA-TAAAATGCTCCTCTAAAC
*
6423666 AAAGGCACCACAACTTT
64 AGAGGCACCACAACTTT
* *
6423683 AAAAAATAAAATACTCCTCTAAACAAATGCACCACAATTTTGGAAAATAAAATGCTCCTCTAAAT
1 GAAAAATAAAATACTCCTCTAAACAAA-GCACCACAATTTT-GAAAATAAAATGCTCCTCTAAAC
*
6423748 AGAGGCATCACAACTTT
64 AGAGGCACCACAACTTT
*
6423765 GAAAAATAAAAGACTC
1 GAAAAATAAAATACTC
6423781 ATTGACAATC
Statistics
Matches: 152, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
82 99 0.65
83 53 0.35
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.24
Consensus pattern (80 bp):
GAAAAATAAAATACTCCTCTAAACAAAGCACCACAATTTTGAAAATAAAATGCTCCTCTAAACAG
AGGCACCACAACTTT
Found at i:6424224 original size:22 final size:22
Alignment explanation
Indices: 6424188--6424230 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6424178 TTTGAAACTC
* * *
6424188 AAAACTCAAAGATTCTTATTTG
1 AAAACTAAAAAATTCTCATTTG
6424210 AAAACTAAAAAATTCTCATTT
1 AAAACTAAAAAATTCTCATTT
6424231 AAGGATTCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.35
Consensus pattern (22 bp):
AAAACTAAAAAATTCTCATTTG
Found at i:6424812 original size:200 final size:200
Alignment explanation
Indices: 6424465--6424855 Score: 584
Period size: 200 Copynumber: 2.0 Consensus size: 200
6424455 ATGCGCATGA
* ***
6424465 ACTATTCAAACAACAATGCTAACATAATGCATGGAATGTGGATGTTAATAATGTCATGAAATCCT
1 ACTATTCAAACAACAATGCTAACATAATGCATGAAATACAGATGTTAATAATGTCATGAAATCCT
* * * * *
6424530 AAATAATTGTTGTAACAAAGTTCTTAAGACTCCACCATTTTGAGCCTTTTAGCACTAGCCATCTT
66 AAATAATTGTGGTAACAAAGTTCTCAAGACTCCACCATTTTAAGCCTTTTAGCACTAACCATCTC
* * * *
6424595 AGAATATATTCTATCTTCTATCACTTGATCATCGCTTATAAGCTTCTCAGCACTAGCCATTTCAG
131 AAAATATATTCTATCTTCTATCACTTGATCATCACTCATAAGCTTCTCAACACTAGCCATTTCAG
6424660 CATAT
196 CATAT
6424665 ACTATTCAAACAACAATGCTAACATAATGCATGAAATACAGATGTTAATAATGTCATGAAATCCT
1 ACTATTCAAACAACAATGCTAACATAATGCATGAAATACAGATGTTAATAATGTCATGAAATCCT
* * ** * * **
6424730 ACATAATTGTGGTAATATGGTTCTCAAGACTCTACTATTTTAAGGTTTTTAGCACTAACCATCTC
66 AAATAATTGTGGTAACAAAGTTCTCAAGACTCCACCATTTTAAGCCTTTTAGCACTAACCATCTC
*
6424795 AAAATATATTTTATCTTCTATCACTTGATCATCACTCATAAGCTTCTCAACACTAGCCATT
131 AAAATATATTCTATCTTCTATCACTTGATCATCACTCATAAGCTTCTCAACACTAGCCATT
6424856 CAGAACAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
200 169 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (200 bp):
ACTATTCAAACAACAATGCTAACATAATGCATGAAATACAGATGTTAATAATGTCATGAAATCCT
AAATAATTGTGGTAACAAAGTTCTCAAGACTCCACCATTTTAAGCCTTTTAGCACTAACCATCTC
AAAATATATTCTATCTTCTATCACTTGATCATCACTCATAAGCTTCTCAACACTAGCCATTTCAG
CATAT
Found at i:6424893 original size:62 final size:62
Alignment explanation
Indices: 6424802--6424933 Score: 176
Period size: 62 Copynumber: 2.1 Consensus size: 62
6424792 CTCAAAATAT
* * *
6424802 ATTTTATCTTCTATCACTTGATCATCACTCATAAGCTTCTCAACACTAGCCA-TTCAGAACAA
1 ATTTCATCATCTATCACTTGATCACCACTCATAAGCTTCTC-ACACTAGCCATTTCAGAACAA
* * * **
6424864 ATTTCATCATCTATCACTTGGTCACCACTCATAGGTTTCTCACACTAGCCATTTCAGAATGA
1 ATTTCATCATCTATCACTTGATCACCACTCATAAGCTTCTCACACTAGCCATTTCAGAACAA
6424926 ATTTCATC
1 ATTTCATC
6424934 CACTGATCCA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
61 10 0.16
62 51 0.84
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (62 bp):
ATTTCATCATCTATCACTTGATCACCACTCATAAGCTTCTCACACTAGCCATTTCAGAACAA
Found at i:6425650 original size:15 final size:15
Alignment explanation
Indices: 6425632--6425665 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6425622 TTTTCTCTTC
*
6425632 TTTTCATTTTTTATT
1 TTTTCATCTTTTATT
*
6425647 TTTTCCTCTTTTATT
1 TTTTCATCTTTTATT
6425662 TTTT
1 TTTT
6425666 TTTCATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTCATCTTTTATT
Found at i:6425675 original size:29 final size:28
Alignment explanation
Indices: 6425622--6425707 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 28
6425612 TAAGTCTTTC
* *
6425622 TTTTCTCTTCTTTTC-ATTT-T-TTATT
1 TTTTCTCTTTTTTTCTTTTTATCTTATT
6425647 TTTTCCTCTTTTATTT-TTTTT-TCATTATT
1 TTTT-CTCTTTT-TTTCTTTTTATC-TTATT
*
6425676 TTCTCTCTTTTTTTCTTTTTATCTTATT
1 TTTTCTCTTTTTTTCTTTTTATCTTATT
6425704 TTTT
1 TTTT
6425708 TTTCTATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
25 4 0.08
26 6 0.12
27 10 0.20
28 20 0.40
29 10 0.20
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTTCTCTTTTTTTCTTTTTATCTTATT
Found at i:6430135 original size:26 final size:26
Alignment explanation
Indices: 6430083--6430135 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
6430073 CACCTAAAAA
*
6430083 TTTTATAAAAATTTACTATTTGAAAT
1 TTTTATAAAAATTTACTATTAGAAAT
* *
6430109 TTTTAT-AAATTTTATTATTAGATAAT
1 TTTTATAAAAATTTACTATTAGA-AAT
6430135 T
1 T
6430136 AATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (26 bp):
TTTTATAAAAATTTACTATTAGAAAT
Found at i:6430255 original size:22 final size:22
Alignment explanation
Indices: 6430205--6430246 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6430195 AAAATATTTC
*
6430205 TAAAAATAAACAAATACATAAA
1 TAAAAATAAACAAATAAATAAA
*
6430227 TAAAAATAAATAAATAAATA
1 TAAAAATAAACAAATAAATA
6430247 CCAAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAAAATAAACAAATAAATAAA
Found at i:6431073 original size:4 final size:4
Alignment explanation
Indices: 6431064--6431115 Score: 68
Period size: 4 Copynumber: 12.8 Consensus size: 4
6431054 ATAAACCAAA
* * *
6431064 AAAT AAAT AAAT AAAT AGAT AAAT AATT AAAA AATAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT
6431113 AAA
1 AAA
6431116 AGGTAATTGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
4 38 0.93
5 3 0.07
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:6432157 original size:23 final size:23
Alignment explanation
Indices: 6432099--6432150 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
6432089 AAGATAAGAT
* *
6432099 TTTTTAAACAAAAAGTGAAAAAC
1 TTTTGAAATAAAAAGTGAAAAAC
6432122 TTTTGAAATAAAAAGTG-AAAA-
1 TTTTGAAATAAAAAGTGAAAAAC
6432143 TTTTGAAA
1 TTTTGAAA
6432151 GTGAAAACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 8 0.30
22 4 0.15
23 15 0.56
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.31
Consensus pattern (23 bp):
TTTTGAAATAAAAAGTGAAAAAC
Found at i:6432535 original size:22 final size:22
Alignment explanation
Indices: 6432439--6432545 Score: 81
Period size: 22 Copynumber: 4.9 Consensus size: 22
6432429 AAGTCTTGTG
* *
6432439 GGCATAATTTCAAAATCCTCCA
1 GGCATAATTTCAAAGTCCTTCA
* * * *
6432461 GGCACAATCTAAAAGTCCTCCA
1 GGCATAATTTCAAAGTCCTTCA
* ** *
6432483 AGCATAATCACAAAGCCCTTC-
1 GGCATAATTTCAAAGTCCTTCA
* *
6432504 GGACACAATTTCAAAGTCTTTCA
1 GG-CATAATTTCAAAGTCCTTCA
*
6432527 GGCATAATTTTAAAGTCCT
1 GGCATAATTTCAAAGTCCT
6432546 CCGAGCACAG
Statistics
Matches: 64, Mismatches: 19, Indels: 4
0.74 0.22 0.05
Matches are distributed among these distances:
21 1 0.02
22 61 0.95
23 2 0.03
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (22 bp):
GGCATAATTTCAAAGTCCTTCA
Found at i:6432563 original size:22 final size:22
Alignment explanation
Indices: 6432538--6432587 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
6432528 GCATAATTTT
*
6432538 AAAGTCCTCCGAGCACAGATTC
1 AAAGTCCTCCAAGCACAGATTC
*
6432560 AAAGTCCTCCAAGCACAGTTTC
1 AAAGTCCTCCAAGCACAGATTC
6432582 AAAGTC
1 AAAGTC
6432588 TTTTGGGTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (22 bp):
AAAGTCCTCCAAGCACAGATTC
Found at i:6432563 original size:66 final size:66
Alignment explanation
Indices: 6432444--6432590 Score: 145
Period size: 66 Copynumber: 2.2 Consensus size: 66
6432434 TTGTGGGCAT
* * * * * *
6432444 AATTTCAAAATCCTCCAGGCACAATCTAAAAGTCCTCCAAGCATAATCACAAAGCCCTTC-GGAC
1 AATTTCAAAGTCTTTCAGGCACAATCTAAAAGTCCTCCAAGCACAATCACAAAGCCCTCCAAG-C
6432508 AC
65 AC
* * * * * *
6432510 AATTTCAAAGTCTTTCAGGCATAATTTTAAAGTCCTCCGAGCACAGAT-TCAAAGTCCTCCAAGC
1 AATTTCAAAGTCTTTCAGGCACAATCTAAAAGTCCTCCAAGCACA-ATCACAAAGCCCTCCAAGC
6432574 AC
65 AC
*
6432576 AGTTTCAAAGTCTTT
1 AATTTCAAAGTCTTT
6432591 TGGGTGGAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
66 63 0.95
67 3 0.05
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (66 bp):
AATTTCAAAGTCTTTCAGGCACAATCTAAAAGTCCTCCAAGCACAATCACAAAGCCCTCCAAGCA
C
Found at i:6435047 original size:17 final size:17
Alignment explanation
Indices: 6435025--6435059 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6435015 ATCTATTTTT
6435025 ATGAAACCACAAA-TCCA
1 ATGAAACC-CAAATTCCA
6435042 ATGAAACCCAAATTCCA
1 ATGAAACCCAAATTCCA
6435059 A
1 A
6435060 ATCTCAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.51, C:0.29, G:0.06, T:0.14
Consensus pattern (17 bp):
ATGAAACCCAAATTCCA
Found at i:6438432 original size:41 final size:39
Alignment explanation
Indices: 6438244--6438436 Score: 122
Period size: 40 Copynumber: 4.8 Consensus size: 39
6438234 AATACAAAAC
* * *
6438244 TTCCAAGACTTTTAGGTAAAATCTTAAAATTTTTGAAAGAA
1 TTCCAAGACTTCT-GGTAAAAT-TTTAAATTTTTGAATGAA
* * *
6438285 TTGCAAGAGCTTCAGGTAAAATCTTAAATTTTTGAAT-AA
1 TTCCAAGA-CTTCTGGTAAAATTTTAAATTTTTGAATGAA
* * * ** *
6438324 TTTCCAACG-CCTCCGAGCAAAACCTTAAATTTTTAAATGAA
1 -TTCCAA-GACTTCTG-GTAAAATTTTAAATTTTTGAATGAA
* * * * * *
6438365 TTGCAAGATTTATGGGCAAAACTTTAAATGTTTTGAATGAT
1 TTCCAAGACTTCT-GGTAAAATTTTAAAT-TTTTGAATGAA
6438406 TTCCAAGACTTCTGGATAAAATTTT-AATTTT
1 TTCCAAGACTTCTGG-TAAAATTTTAAATTTT
6438437 CAAAAGATTT
Statistics
Matches: 118, Mismatches: 25, Indels: 20
0.72 0.15 0.12
Matches are distributed among these distances:
39 10 0.08
40 60 0.51
41 45 0.38
42 3 0.03
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (39 bp):
TTCCAAGACTTCTGGTAAAATTTTAAATTTTTGAATGAA
Found at i:6438452 original size:39 final size:41
Alignment explanation
Indices: 6438403--6438488 Score: 122
Period size: 40 Copynumber: 2.1 Consensus size: 41
6438393 TGTTTTGAAT
*
6438403 GATTTCCAAGAC-TTCTGGATAAAATTTTAA-TTTTCAAAA
1 GATTTCCAAGACTTTCTGGACAAAATTTTAATTTTTCAAAA
* * *
6438442 GATTTTCAAGACTTTGTGGGCAAAATTTTAATTTTTCAAAA
1 GATTTCCAAGACTTTCTGGACAAAATTTTAATTTTTCAAAA
6438483 GATTTC
1 GATTTC
6438489 AAAGCCCTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 11 0.28
40 15 0.38
41 14 0.35
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (41 bp):
GATTTCCAAGACTTTCTGGACAAAATTTTAATTTTTCAAAA
Found at i:6438571 original size:22 final size:22
Alignment explanation
Indices: 6438484--6438639 Score: 106
Period size: 22 Copynumber: 7.1 Consensus size: 22
6438474 TTTTCAAAAG
* * *
6438484 ATTTCAAAGCCCTCCAGCCACA
1 ATTTCAAAGTCCTCTAGGCACA
*
6438506 ATTTCAAAGTCCT-TTGG-ACA
1 ATTTCAAAGTCCTCTAGGCACA
6438526 GATTCTCAAAGT-CT-TAAGGACACA
1 -ATT-TCAAAGTCCTCT-AGG-CACA
6438550 ATTTCAAAGTCCTCTAGGCACA
1 ATTTCAAAGTCCTCTAGGCACA
* * *
6438572 ATCTCAAAGTTCTC-ATGACACA
1 ATTTCAAAGTCCTCTA-GGCACA
* * * * *
6438594 ATCTCAAAGTCCTCCAAGTATA
1 ATTTCAAAGTCCTCTAGGCACA
* *
6438616 ATTTCAAAATCCTCTAAGCACA
1 ATTTCAAAGTCCTCTAGGCACA
6438638 AT
1 AT
6438640 CTCAGCATCC
Statistics
Matches: 107, Mismatches: 18, Indels: 18
0.75 0.13 0.13
Matches are distributed among these distances:
20 3 0.03
21 8 0.07
22 83 0.78
23 9 0.08
24 4 0.04
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (22 bp):
ATTTCAAAGTCCTCTAGGCACA
Found at i:6438577 original size:44 final size:45
Alignment explanation
Indices: 6438502--6438607 Score: 130
Period size: 44 Copynumber: 2.4 Consensus size: 45
6438492 GCCCTCCAGC
*
6438502 CACAATTTCAAAGTCCT-TTGGACAGATTCTCAAAG-TCTTAAGGA
1 CACAATTTCAAAGTCCTCTAGGACAGATTCTCAAAGTTC-TAAGGA
* *
6438546 CACAATTTCAAAGTCCTCTAGGCACA-A-TCTCAAAGTTCTCATGA
1 CACAATTTCAAAGTCCTCTAGG-ACAGATTCTCAAAGTTCTAAGGA
*
6438590 CACAATCTCAAAGTCCTC
1 CACAATTTCAAAGTCCTC
6438608 CAAGTATAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
44 46 0.84
45 6 0.11
46 3 0.05
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.27
Consensus pattern (45 bp):
CACAATTTCAAAGTCCTCTAGGACAGATTCTCAAAGTTCTAAGGA
Found at i:6438599 original size:66 final size:66
Alignment explanation
Indices: 6438484--6438643 Score: 155
Period size: 66 Copynumber: 2.4 Consensus size: 66
6438474 TTTTCAAAAG
* * * * * * * *
6438484 ATTTCAAAGCCCTCCAGCCACAATTTCAAAGTCCTTTGGACAGATTCTCAAAGT-CT-TAAGGAC
1 ATTTCAAAGTCCTCTAGGCACAATCTCAAAGTCCTATGGACACAATCTCAAAGTCCTCCAA-G-C
6438547 ACA
64 ACA
* *
6438550 ATTTCAAAGTCCTCTAGGCACAATCTCAAAGTTCTCAT-GACACAATCTCAAAGTCCTCCAAGTA
1 ATTTCAAAGTCCTCTAGGCACAATCTCAAAGTCCT-ATGGACACAATCTCAAAGTCCTCCAAGCA
*
6438614 TA
65 CA
* *
6438616 ATTTCAAAATCCTCTAAGCACAATCTCA
1 ATTTCAAAGTCCTCTAGGCACAATCTCA
6438644 GCATCCTCCT
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
66 72 0.92
67 4 0.05
68 2 0.03
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.27
Consensus pattern (66 bp):
ATTTCAAAGTCCTCTAGGCACAATCTCAAAGTCCTATGGACACAATCTCAAAGTCCTCCAAGCAC
A
Found at i:6438671 original size:22 final size:21
Alignment explanation
Indices: 6438546--6438688 Score: 81
Period size: 22 Copynumber: 6.5 Consensus size: 21
6438536 GTCTTAAGGA
*
6438546 CACAATTTCAAAGTCCTCTAGG
1 CACAATTTCAAAATCCTCTA-G
* * *
6438568 CACAATCTCAAAGTTCTC-ATG
1 CACAATTTCAAAATCCTCTA-G
* * *
6438589 ACACAATCTCAAAGTCCTCCAAG
1 -CACAATTTCAAAATCCT-CTAG
* *
6438612 TATAATTTCAAAATCCTCTAAG
1 CACAATTTCAAAATCCTCT-AG
* **
6438634 CACAATCTCAGCATCCTCCTAG
1 CACAATTTCAAAATCCT-CTAG
* *
6438656 CACAATTTTAAAATCCTTCGAG
1 CACAATTTCAAAATCC-TCTAG
*
6438678 CACAATATCAA
1 CACAATTTCAA
6438689 TTTACAAAAA
Statistics
Matches: 94, Mismatches: 21, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
21 3 0.03
22 85 0.90
23 5 0.05
24 1 0.01
ACGTcount: A:0.36, C:0.29, G:0.08, T:0.27
Consensus pattern (21 bp):
CACAATTTCAAAATCCTCTAG
Found at i:6438733 original size:20 final size:20
Alignment explanation
Indices: 6438705--6438745 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6438695 AAAAACTTTG
* * *
6438705 ACAACCAAAAATACAAACAA
1 ACAAACAAAAACAAAAACAA
6438725 ACAAACAAAAACAAAAACAA
1 ACAAACAAAAACAAAAACAA
6438745 A
1 A
6438746 AGCAAAAGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.76, C:0.22, G:0.00, T:0.02
Consensus pattern (20 bp):
ACAAACAAAAACAAAAACAA
Found at i:6438738 original size:6 final size:6
Alignment explanation
Indices: 6438727--6438771 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
6438717 ACAAACAAAC
* * * *
6438727 AAACAA AAACAA AAACAA AAGCAA AAGCAA AAGCAA AAATAA AAA
1 AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA AAA
6438772 AATAAAAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.78, C:0.13, G:0.07, T:0.02
Consensus pattern (6 bp):
AAACAA
Found at i:6441162 original size:7 final size:6
Alignment explanation
Indices: 6441146--6441201 Score: 51
Period size: 7 Copynumber: 8.5 Consensus size: 6
6441136 ACCCCAAAAC
6441146 CCTAAA -CTAAA CTCTAAA CCTCAAA CTCTAAA CCTTAAA CCTCAAA CCCTAAA
1 CCTAAA CCTAAA C-CTAAA CCT-AAA C-CTAAA CC-TAAA CCT-AAA -CCTAAA
6441199 CCT
1 CCT
6441202 TAAAATCAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
5 5 0.12
6 7 0.16
7 26 0.60
8 5 0.12
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (6 bp):
CCTAAA
Found at i:6441173 original size:14 final size:13
Alignment explanation
Indices: 6441142--6441199 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 13
6441132 TGAAACCCCA
*
6441142 AAACCCTAAA-CT
1 AAACTCTAAACCT
6441154 AAACTCTAAACCT
1 AAACTCTAAACCT
6441167 CAAACTCTAAACCTT
1 -AAACTCTAAACC-T
6441182 AAAC-CTCAAACCCT
1 AAACTCT-AAA-CCT
6441196 AAAC
1 AAAC
6441200 CTTAAAATCA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
12 9 0.22
13 4 0.10
14 24 0.60
15 3 0.08
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (13 bp):
AAACTCTAAACCT
Found at i:6441178 original size:21 final size:21
Alignment explanation
Indices: 6441152--6441205 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
6441142 AAACCCTAAA
*
6441152 CTAAA-CTCTAAACCTCAAACT
1 CTAAACCT-TAAACCTCAAACC
6441173 CTAAACCTTAAACCTCAAACC
1 CTAAACCTTAAACCTCAAACC
6441194 CTAAACCTTAAA
1 CTAAACCTTAAA
6441206 ATCAACCCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (21 bp):
CTAAACCTTAAACCTCAAACC
Found at i:6441200 original size:14 final size:14
Alignment explanation
Indices: 6441142--6441244 Score: 51
Period size: 14 Copynumber: 7.7 Consensus size: 14
6441132 TGAAACCCCA
6441142 AAACCCTAAA-CT-
1 AAACCCTAAACCTC
*
6441154 AAACTCTAAACCTC
1 AAACCCTAAACCTC
* *
6441168 AAACTCTAAACCTT
1 AAACCCTAAACCTC
6441182 AAA-CCTCAAACC-C
1 AAACCCT-AAACCTC
* *
6441195 TAAACCTTAAA-ATC
1 -AAACCCTAAACCTC
* *
6441209 -AACCC-ATACCCC
1 AAACCCTAAACCTC
*
6441221 AAAAACC-AAACCTC
1 -AAACCCTAAACCTC
6441235 AAACCCTAAA
1 AAACCCTAAA
6441245 ACTAATCATG
Statistics
Matches: 67, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
11 2 0.03
12 14 0.21
13 9 0.13
14 40 0.60
15 2 0.03
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.17
Consensus pattern (14 bp):
AAACCCTAAACCTC
Found at i:6441692 original size:14 final size:13
Alignment explanation
Indices: 6441666--6441716 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
6441656 TTTTTTAAAG
6441666 AAAAAAAAGGAAA
1 AAAAAAAAGGAAA
*
6441679 AAAAATAAATG-AA
1 AAAAA-AAAGGAAA
6441692 AAAAAAAA-GAAA
1 AAAAAAAAGGAAA
*
6441704 AGAAGAAAAGGAA
1 A-AAAAAAAGGAA
6441717 TTAATTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
11 1 0.03
12 6 0.19
13 18 0.56
14 7 0.22
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (13 bp):
AAAAAAAAGGAAA
Found at i:6444239 original size:25 final size:25
Alignment explanation
Indices: 6444188--6444236 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
6444178 ATATAATTAT
* *
6444188 TTACAATAATATCCTCTTATCATAA
1 TTACAAAAATATCCACTTATCATAA
*
6444213 TTACAAAAATAT-CACTTATTATAA
1 TTACAAAAATATCCACTTATCATAA
6444237 ATTGATTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (25 bp):
TTACAAAAATATCCACTTATCATAA
Found at i:6444479 original size:61 final size:60
Alignment explanation
Indices: 6444346--6444484 Score: 147
Period size: 60 Copynumber: 2.3 Consensus size: 60
6444336 CTTATTATTG
* * * * * *
6444346 AATTACAAAAATACCTTTTTCTTATTATTGATCAAATTTAATATAATATCCTCTTCTTAT
1 AATTACGAAAATACCTTTTTCTCATAATTGATCAAAATTAATATAATACCCACTTCTTAT
* * *
6444406 AATTATGGAAATA-CTTTTCTCTCATAATTGATCAAAATTACTATAATACCCCACTTAC-TAT
1 AATTACGAAAATACCTTTT-TCTCATAATTGATCAAAATTAATATAATA-CCCACTT-CTTAT
*
6444467 AATTACGAAAATATCTTT
1 AATTACGAAAATACCTTT
6444485 ATGAATACTT
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
59 5 0.08
60 35 0.55
61 19 0.30
62 5 0.08
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.42
Consensus pattern (60 bp):
AATTACGAAAATACCTTTTTCTCATAATTGATCAAAATTAATATAATACCCACTTCTTAT
Found at i:6444735 original size:54 final size:53
Alignment explanation
Indices: 6444675--6444865 Score: 179
Period size: 54 Copynumber: 3.6 Consensus size: 53
6444665 TATGCTCACA
*
6444675 TCATAATTACAAAAATATCCCTTCTCTTATAATTATTTACTATAAACCCTTAT
1 TCATAATTACAAAAATATCCATTCTCTTATAATTATTTACTATAAACCCTTAT
* ** * * * *** * *
6444728 TCCATAATTAGAAAAATATCCCCTCTCATAAAATTGA-CTACTATTTTCTCATAT
1 T-CATAATTACAAAAATATCCATTCTCTTATAATT-ATTTACTATAAACCCTTAT
* * *
6444782 T-ATAATTACAAAAATATTCATTCTCTTATAATTATTTAATATAATACCCTCAT
1 TCATAATTACAAAAATATCCATTCTCTTATAATTATTTACTATAA-ACCCTTAT
* *
6444835 ATCATAATTACATAAATATCCATTCACTTAT
1 -TCATAATTACAAAAATATCCATTCTCTTAT
6444866 TATTGAATTA
Statistics
Matches: 105, Mismatches: 27, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
51 1 0.01
52 31 0.30
53 5 0.05
54 42 0.40
55 26 0.25
ACGTcount: A:0.39, C:0.19, G:0.01, T:0.40
Consensus pattern (53 bp):
TCATAATTACAAAAATATCCATTCTCTTATAATTATTTACTATAAACCCTTAT
Found at i:6444875 original size:31 final size:31
Alignment explanation
Indices: 6444840--6444902 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
6444830 CTCATATCAT
6444840 AATTAC-ATAAATATCCATTCACTTATTATTG
1 AATTACGA-AAATATCCATTCACTTATTATTG
** * *
6444871 AATTACGAAGGTATTCATTCTCTTATTATTG
1 AATTACGAAAATATCCATTCACTTATTATTG
6444902 A
1 A
6444903 TCAAAATTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (31 bp):
AATTACGAAAATATCCATTCACTTATTATTG
Found at i:6445084 original size:9 final size:9
Alignment explanation
Indices: 6445070--6445095 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6445060 TCGATCTGAT
6445070 TTTTTTTAA
1 TTTTTTTAA
6445079 TTTTTTTAA
1 TTTTTTTAA
6445088 TTTTTTTA
1 TTTTTTTA
6445096 TACCTGATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:6446015 original size:25 final size:26
Alignment explanation
Indices: 6445967--6446017 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
6445957 ATCATAATTG
6445967 ATCAAAATTATTGTAATACTTCTTAT
1 ATCAAAATTATTGTAATACTTCTTAT
*
6445993 ATCATAATTA-TGTAAATAC-TCTTAT
1 ATCAAAATTATTGT-AATACTTCTTAT
6446018 GAATGTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (26 bp):
ATCAAAATTATTGTAATACTTCTTAT
Found at i:6446228 original size:25 final size:26
Alignment explanation
Indices: 6446194--6446255 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 26
6446184 ATCAAATGAG
*
6446194 TTAAACAATTATAATTTATA-TTAAAA
1 TTAAAAAATT-TAATTTATATTTAAAA
6446220 -TAAAAAA-TTAATTTATATTTTAAAA
1 TTAAAAAATTTAATTTATA-TTTAAAA
6446245 TTAAAAAATTT
1 TTAAAAAATTT
6446256 GATCCTGACA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
23 9 0.29
24 1 0.03
25 12 0.39
26 7 0.23
27 2 0.06
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
TTAAAAAATTTAATTTATATTTAAAA
Found at i:6446235 original size:23 final size:25
Alignment explanation
Indices: 6446205--6446254 Score: 77
Period size: 23 Copynumber: 2.0 Consensus size: 25
6446195 TAAACAATTA
6446205 TAATTTATA-TTAAAA-TAAAAAAT
1 TAATTTATATTTAAAATTAAAAAAT
6446228 TAATTTATATTTTAAAATTAAAAAAT
1 TAATTTATA-TTTAAAATTAAAAAAT
6446254 T
1 T
6446255 TGATCCTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 9 0.38
25 6 0.25
26 9 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TAATTTATATTTAAAATTAAAAAAT
Found at i:6446856 original size:21 final size:21
Alignment explanation
Indices: 6446830--6446876 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
6446820 CGAACATGAG
* *
6446830 ATTAATTATTATAATATTAAA
1 ATTAATTATTAAAATAATAAA
6446851 ATTAATTATTAAAATAATAAA
1 ATTAATTATTAAAATAATAAA
6446872 ATTAA
1 ATTAA
6446877 AATGGTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTAATTATTAAAATAATAAA
Found at i:6446969 original size:30 final size:30
Alignment explanation
Indices: 6446935--6447002 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
6446925 AAATTATTTA
6446935 ATATTTATAAAACTAATAAA-TAATAAAATT
1 ATATTTATAAAA-TAATAAATTAATAAAATT
* ** *
6446965 ATATTTTTATTATATTAAATTAATAAAATT
1 ATATTTATAAAATAATAAATTAATAAAATT
6446995 AT-TTTATA
1 ATATTTATA
6447003 GTTTTCAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (30 bp):
ATATTTATAAAATAATAAATTAATAAAATT
Found at i:6450438 original size:52 final size:52
Alignment explanation
Indices: 6450360--6450459 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 52
6450350 TTAAGGCACG
*
6450360 ATAATTCACTCATCGAATCTTAAAATGTTGCATATTATGCTTTACACGCATA
1 ATAATTCACTAATCGAATCTTAAAATGTTGCATATTATGCTTTACACGCATA
* * * *
6450412 ATAATTCACTAATTGAAT-GTATAAATGTTTCATATTTTGCTTTACACG
1 ATAATTCACTAATCGAATCTTA-AAATGTTGCATATTATGCTTTACACG
6450460 TATCCATTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.05
52 40 0.95
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (52 bp):
ATAATTCACTAATCGAATCTTAAAATGTTGCATATTATGCTTTACACGCATA
Found at i:6451162 original size:19 final size:19
Alignment explanation
Indices: 6451140--6451177 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
6451130 TTTTTGTTGG
*
6451140 ATTT-TTTTTGTTTTATTTT
1 ATTTATTTTT-TTTAATTTT
6451159 ATTTATTTTTTTTAATTTT
1 ATTTATTTTTTTTAATTTT
6451178 TTAATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.82
Consensus pattern (19 bp):
ATTTATTTTTTTTAATTTT
Found at i:6451820 original size:22 final size:23
Alignment explanation
Indices: 6451788--6451830 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6451778 AGTTCATATT
**
6451788 TTTTTTCAATCATCAATATTTAC
1 TTTTTTCAATCAAAAATATTTAC
6451811 TTTTTT-AATCAAAAATATTT
1 TTTTTTCAATCAAAAATATTT
6451831 TTCTTAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTTTCAATCAAAAATATTTAC
Found at i:6452217 original size:22 final size:22
Alignment explanation
Indices: 6452181--6452229 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
6452171 TGGATAATAG
6452181 TTAGTTAGATTTTTTTG-TAAA
1 TTAGTTAGATTTTTTTGTTAAA
* *
6452202 TTAGTTTGTATTTTTTTGTTTAA
1 TTAGTTAG-ATTTTTTTGTTAAA
6452225 TTAGT
1 TTAGT
6452230 GTTTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.29
22 9 0.38
23 8 0.33
ACGTcount: A:0.22, C:0.00, G:0.14, T:0.63
Consensus pattern (22 bp):
TTAGTTAGATTTTTTTGTTAAA
Found at i:6454698 original size:2 final size:2
Alignment explanation
Indices: 6454691--6454720 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6454681 GTAAATACCT
6454691 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6454721 AGGACTATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6454963 original size:25 final size:25
Alignment explanation
Indices: 6454929--6454979 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
6454919 TTTGATTTTG
*
6454929 GCTAAAATAGTGTTAGAAGTGAGGT
1 GCTAAAATAGTGCTAGAAGTGAGGT
6454954 GCTAAAATAGTGCTAGAAGTGAGGT
1 GCTAAAATAGTGCTAGAAGTGAGGT
6454979 G
1 G
6454980 TTGGACTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.06, G:0.33, T:0.25
Consensus pattern (25 bp):
GCTAAAATAGTGCTAGAAGTGAGGT
Found at i:6457462 original size:24 final size:23
Alignment explanation
Indices: 6457428--6457486 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
6457418 CAAGTAATTC
*
6457428 AAAATATAATATAATAATATGACAT
1 AAAA-ATAATATAAAAATAT-ACAT
*
6457453 AAAAATAATATAAAAATATAGAT
1 AAAAATAATATAAAAATATACAT
*
6457476 AAAAATGATAT
1 AAAAATAATAT
6457487 GAATTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 13 0.42
24 14 0.45
25 4 0.13
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (23 bp):
AAAAATAATATAAAAATATACAT
Found at i:6457983 original size:29 final size:29
Alignment explanation
Indices: 6457941--6458008 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
6457931 AGACAGGGAC
6457941 AACTCTAAAATTTTCCAAGATGTCAGGCT
1 AACTCTAAAATTTTCCAAGATGTCAGGCT
*
6457970 AACTTTAAAATTTTCCAAGATGTCAGGCT
1 AACTCTAAAATTTTCCAAGATGTCAGGCT
6457999 AACTCTAAAA
1 AACTCTAAAA
6458009 CGTGGCCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (29 bp):
AACTCTAAAATTTTCCAAGATGTCAGGCT
Found at i:6458217 original size:22 final size:22
Alignment explanation
Indices: 6458183--6458235 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
6458173 TTTATTATTA
*
6458183 AAGATAATATATTTTTATAGATT
1 AAGATTAT-TATTTTTATAGATT
*
6458206 CAGATTATTATTTTTATAGATT
1 AAGATTATTATTTTTATAGATT
6458228 AAGATTAT
1 AAGATTAT
6458236 ATATACATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (22 bp):
AAGATTATTATTTTTATAGATT
Found at i:6458535 original size:23 final size:24
Alignment explanation
Indices: 6458509--6458562 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 24
6458499 AAATTATAAA
6458509 AAAAAATATGAATTTT-AGATAT-T
1 AAAAAATAT-AATTTTAAGATATCT
6458532 AAAAATATATAATTTTAAGATATCT
1 AAAAA-ATATAATTTTAAGATATCT
6458557 AAAAAA
1 AAAAAA
6458563 ATGGGGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 11 0.39
24 11 0.39
25 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (24 bp):
AAAAAATATAATTTTAAGATATCT
Found at i:6458535 original size:24 final size:25
Alignment explanation
Indices: 6458508--6458564 Score: 82
Period size: 24 Copynumber: 2.3 Consensus size: 25
6458498 AAAATTATAA
6458508 AAAAAAATATGAATTTT-AGATAT-T
1 AAAAAAATAT-AATTTTAAGATATCT
*
6458532 AAAAATATATAATTTTAAGATATCT
1 AAAAAAATATAATTTTAAGATATCT
6458557 AAAAAAAT
1 AAAAAAAT
6458565 GGGGAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 6 0.21
24 15 0.52
25 8 0.28
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (25 bp):
AAAAAAATATAATTTTAAGATATCT
Found at i:6459622 original size:19 final size:19
Alignment explanation
Indices: 6459598--6459636 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
6459588 GCTCAGGTAG
6459598 TTGGCTTTCCATTCCACCT
1 TTGGCTTTCCATTCCACCT
6459617 TTGGCTTTCCATTCCACCT
1 TTGGCTTTCCATTCCACCT
6459636 T
1 T
6459637 CTAAGACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.36, G:0.10, T:0.44
Consensus pattern (19 bp):
TTGGCTTTCCATTCCACCT
Found at i:6460307 original size:13 final size:13
Alignment explanation
Indices: 6460291--6460316 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6460281 AATTGTGTCA
6460291 TATAAAATATTGT
1 TATAAAATATTGT
6460304 TATAAAATATTGT
1 TATAAAATATTGT
6460317 ATTTATATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TATAAAATATTGT
Found at i:6461082 original size:22 final size:22
Alignment explanation
Indices: 6461055--6461097 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6461045 AATATATTTT
*
6461055 ATAAAAATAAATAAAGAAAAAG
1 ATAAAAACAAATAAAGAAAAAG
* *
6461077 ATAAAAACAATTCAAGAAAAA
1 ATAAAAACAAATAAAGAAAAA
6461098 TTTTGATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.74, C:0.05, G:0.07, T:0.14
Consensus pattern (22 bp):
ATAAAAACAAATAAAGAAAAAG
Found at i:6461341 original size:31 final size:32
Alignment explanation
Indices: 6461278--6461347 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
6461268 ATCATTTTTT
* * *
6461278 AAAATTAAGTAAAAATTTTTATATCGATTTAA
1 AAAATTAAATAAAAATCTCTATATCGATTTAA
6461310 AAAATTAAATAAAAA-CTCTATATC-ATGTTAA
1 AAAATTAAATAAAAATCTCTATATCGAT-TTAA
*
6461341 AATATTA
1 AAAATTA
6461348 TGTAAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 2 0.06
31 17 0.52
32 14 0.42
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (32 bp):
AAAATTAAATAAAAATCTCTATATCGATTTAA
Found at i:6463439 original size:52 final size:53
Alignment explanation
Indices: 6463355--6463510 Score: 167
Period size: 52 Copynumber: 3.0 Consensus size: 53
6463345 TATAACCATA
* ** * * *
6463355 CAAACTTGCCCATTAAGAATCCCTTTCTTTTTAAAATTCTTCTTC-TGTAAGT
1 CAAACTTGCCTATTAAGAATCTTTTTCCTTTTAGAATTCTTCTTCTTGCAAGT
*
6463407 CAAACTTGCCTATTAAAAATCTTTTTCCTTTTAGAATTCTTC-TCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCTTTTTCCTTTTAGAATTCTTCTTCTTGCAAGT
* * * * *
6463459 CAAACTTACTTATTAAGAATATTCTTT-CTCTTAGAATTCTTCTT-TTACAAGT
1 CAAACTTGCCTATTAAGAATCTT-TTTCCTTTTAGAATTCTTCTTCTTGCAAGT
6463511 TTTCTTGTCC
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
51 2 0.02
52 82 0.93
53 4 0.05
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (53 bp):
CAAACTTGCCTATTAAGAATCTTTTTCCTTTTAGAATTCTTCTTCTTGCAAGT
Found at i:6463554 original size:11 final size:11
Alignment explanation
Indices: 6463536--6463577 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
6463526 GCAATATCTG
6463536 ACAAATCTCAA
1 ACAAATCTCAA
* *
6463547 ATAAATCTCTA
1 ACAAATCTCAA
6463558 ACAAATCTCAA
1 ACAAATCTCAA
6463569 ACAAATCTC
1 ACAAATCTC
6463578 TTATGAGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:6463561 original size:22 final size:22
Alignment explanation
Indices: 6463536--6463578 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6463526 GCAATATCTG
*
6463536 ACAAATCTCAAATAAATCTCTA
1 ACAAATCTCAAACAAATCTCTA
6463558 ACAAATCTCAAACAAATCTCT
1 ACAAATCTCAAACAAATCTCT
6463579 TATGAGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (22 bp):
ACAAATCTCAAACAAATCTCTA
Done.